Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 107 of 279
Found at i:33947179 original size:28 final size:28
Alignment explanation
Indices: 33947132--33947196 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
33947122 AAATTAACCC
*
33947132 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
33947160 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
33947188 TAGGGGTAT
1 TAGGGGTAT
33947197 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:33953538 original size:26 final size:26
Alignment explanation
Indices: 33953508--33953563 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
33953498 TGAAATTCCC
*
33953508 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33953534 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33953560 ATCA
1 ATCA
33953564 ATTTGTTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:33957418 original size:58 final size:58
Alignment explanation
Indices: 33957329--33957441 Score: 140
Period size: 58 Copynumber: 1.9 Consensus size: 58
33957319 GTTCAAGGAT
* * *
33957329 TAACTTGAACAAAAGAAAAGTTGGCCTCAATGTGGGAACAATTGTGAAGTTTAGGGCC
1 TAACTTGAACAAAAGAAAAGTTGGCCCCAATGTAGGAACAATTGTCAAGTTTAGGGCC
* * *
33957387 TAACTTGGAC-AAA-AAAAGTTTAGGCCCCAATGTAGGAATAGTTGTCAAGTTTAGG
1 TAACTTGAACAAAAGAAAAG-TT-GGCCCCAATGTAGGAACAATTGTCAAGTTTAGG
33957442 CCCAAAATAG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
56 5 0.11
57 5 0.11
58 37 0.79
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (58 bp):
TAACTTGAACAAAAGAAAAGTTGGCCCCAATGTAGGAACAATTGTCAAGTTTAGGGCC
Found at i:33960210 original size:21 final size:21
Alignment explanation
Indices: 33960180--33960231 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
33960170 TACACTCTGC
* *
33960180 TCACACGGGCGTGTGGGGCCT
1 TCACATGGGCGTGTGGAGCCT
*
33960201 TCACATGGGCGTGTGTAGCCT
1 TCACATGGGCGTGTGGAGCCT
*
33960222 CCACATGGGC
1 TCACATGGGC
33960232 CTGTAGACCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.13, C:0.29, G:0.37, T:0.21
Consensus pattern (21 bp):
TCACATGGGCGTGTGGAGCCT
Found at i:33965753 original size:29 final size:26
Alignment explanation
Indices: 33965721--33965789 Score: 68
Period size: 29 Copynumber: 2.5 Consensus size: 26
33965711 AATATTAAGT
33965721 AAATAAATAAATAAGTGAATATCAATAAA
1 AAATAAATAAATAAGTGAA-A-CAA-AAA
* * *
33965750 AAATTAATTAAA-AATTGAAACAAAAT
1 AAA-TAAATAAATAAGTGAAACAAAAA
33965776 AAATAAATAAATAA
1 AAATAAATAAATAA
33965790 TAAATAACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
25 7 0.21
26 7 0.21
27 3 0.09
28 1 0.03
29 9 0.26
30 7 0.21
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.25
Consensus pattern (26 bp):
AAATAAATAAATAAGTGAAACAAAAA
Found at i:33969870 original size:18 final size:18
Alignment explanation
Indices: 33969849--33969908 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
33969839 AATCGGTTAA
*
33969849 TCAGTAATATTCAATTAT
1 TCAGTAATAGTCAATTAT
**
33969867 TCAGT-ATCAGTCGTTTAT
1 TCAGTAAT-AGTCAATTAT
*
33969885 TCTGTAATAGTCAATTAT
1 TCAGTAATAGTCAATTAT
33969903 TCAGTA
1 TCAGTA
33969909 GCAGACAGTC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 2 0.06
18 29 0.88
19 2 0.06
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (18 bp):
TCAGTAATAGTCAATTAT
Found at i:33970671 original size:27 final size:27
Alignment explanation
Indices: 33970636--33970804 Score: 187
Period size: 27 Copynumber: 6.3 Consensus size: 27
33970626 CCCATTTGAG
33970636 GATAATTCTACCCTACAGGGGTATTTT
1 GATAATTCTACCCTACAGGGGTATTTT
*
33970663 GATATTTCTACCCTACAGGGGTATTTT
1 GATAATTCTACCCTACAGGGGTATTTT
* * *
33970690 GATATTTCTACCCTACAAGGGTATTTC
1 GATAATTCTACCCTACAGGGGTATTTT
* * * * *
33970717 GGTAATTCTAACCTAGAGGGTTATTTC
1 GATAATTCTACCCTACAGGGGTATTTT
*
33970744 GGTAATTCTACCCTACAGGGGTATTTT
1 GATAATTCTACCCTACAGGGGTATTTT
* * **
33970771 GGTAATTTTA-CAAACCAGGGGTATTTT
1 GATAATTCTACCCTA-CAGGGGTATTTT
*
33970798 GGTAATT
1 GATAATT
33970805 TTACAAGTCG
Statistics
Matches: 125, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
26 2 0.02
27 123 0.98
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (27 bp):
GATAATTCTACCCTACAGGGGTATTTT
Found at i:33970796 original size:54 final size:54
Alignment explanation
Indices: 33970638--33970912 Score: 206
Period size: 54 Copynumber: 5.1 Consensus size: 54
33970628 CATTTGAGGA
* ** *
33970638 TAATTCTACCCTACAGGGGTATTTTGAT-ATTTCTACCCTA-CAGGGGTATTTTGA
1 TAATTCTACCCTACAGGGGTATTTTGGTAATTT-TA-CAAACCAGGGGTATTTTGG
* * * * *
33970692 TATTTCTACCCTACAAGGGTATTTCGGTAA--TT-CTAACCTAGAGGGTTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTTGGTAATTTTACAAACC-AG-GGG-TATTTTGG
33970746 TAATTCTACCCTACAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
* ** * * *** * * *
33970800 TAATTTTACAAGT-C-GATGGTATATCAATAATTTCACAAATCAGGAGTATTTTGG
1 TAATTCTAC-CCTACAG-GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
* ** *
33970854 TAATTTTA-CAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 TAATTCTACCCTAC-AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
33970908 TAATT
1 TAATT
33970913 TTTCTAATCG
Statistics
Matches: 172, Mismatches: 36, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
50 2 0.01
51 1 0.01
52 3 0.02
53 6 0.03
54 145 0.84
55 6 0.03
56 4 0.02
57 5 0.03
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.39
Consensus pattern (54 bp):
TAATTCTACCCTACAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
Found at i:33970805 original size:27 final size:27
Alignment explanation
Indices: 33970759--33970914 Score: 188
Period size: 27 Copynumber: 5.8 Consensus size: 27
33970749 TTCTACCCTA
33970759 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
**
33970786 CAGGGGTATTTTGGTAATTTTACAAGT
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * *** * *
33970813 C-GATGGTATATCAATAATTTCACAAAT
1 CAG-GGGTATTTTGGTAATTTTACAAAC
*
33970840 CAGGAGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
33970867 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
33970894 TAGGGGTATTTTGGTAATTTT
1 CAGGGGTATTTTGGTAATTTT
33970915 TCTAATCGAG
Statistics
Matches: 108, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 1 0.01
27 106 0.98
28 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:33970966 original size:81 final size:80
Alignment explanation
Indices: 33970897--33971076 Score: 207
Period size: 81 Copynumber: 2.2 Consensus size: 80
33970887 TACAAACTAG
* * ** *
33970897 GGGTATTTTGGTAATTTTTCTAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGA
1 GGGTAATTTGGTAATTTTT-AAATCGAGGAAAAAACGGTAATTCTATAAATCGAGGGTAAAACGA
* *
33970962 TAATTCTGTAAATTGA
65 TAATTCTATAAATAGA
* ** * * *
33970978 TGGTAAAATGGTAATTCTATAAATCGAGGAAAAAACGGTAATTCTATAAATCGAGGGTAAAATGG
1 GGGTAATTTGGTAATT-TTTAAATCGAGGAAAAAACGGTAATTCTATAAATCGAGGGTAAAACGA
*
33971043 TAATTCTATAAATCGA
65 TAATTCTATAAATAGA
*
33971059 GGGTACTTTGGTAATTTT
1 GGGTAATTTGGTAATTTT
33971077 ACAAATTGAG
Statistics
Matches: 80, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
80 1 0.01
81 77 0.96
82 2 0.03
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.34
Consensus pattern (80 bp):
GGGTAATTTGGTAATTTTTAAATCGAGGAAAAAACGGTAATTCTATAAATCGAGGGTAAAACGAT
AATTCTATAAATAGA
Found at i:33971074 original size:27 final size:27
Alignment explanation
Indices: 33970918--33971063 Score: 220
Period size: 27 Copynumber: 5.4 Consensus size: 27
33970908 TAATTTTTCT
33970918 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
33970945 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
33970972 AATTGATGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
** *
33970999 AATCGAGGAAAAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
33971026 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
33971053 AATCGAGGGTA
1 AATCGAGGGTA
33971064 CTTTGGTAAT
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 103 1.00
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:33971082 original size:27 final size:27
Alignment explanation
Indices: 33970762--33971088 Score: 160
Period size: 27 Copynumber: 12.1 Consensus size: 27
33970752 TACCCTACAG
* *
33970762 GGGTATTTTGGTAATTTTACAAA-CCA
1 GGGTAATTTGGTAATTTTACAAATCGA
* *
33970788 GGGGTATTTTGGTAATTTTACAAGTCGA
1 -GGGTAATTTGGTAATTTTACAAATCGA
* *** *
33970816 TGGT-ATATCAATAATTTCACAAATC-A
1 GGGTAAT-TTGGTAATTTTACAAATCGA
* *
33970842 GGAGTATTTTGGTAATTTTACAAA-CTA
1 GG-GTAATTTGGTAATTTTACAAATCGA
* *
33970869 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTAATTTGGTAATTTTACAAATCGA
* * *
33970896 GGGGTATTTTGGTAATTTTTCTAATCGA
1 -GGGTAATTTGGTAATTTTACAAATCGA
** * *
33970924 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAATTTGGTAATTTTACAAATCGA
*** * * ** *
33970951 GGGTAAAACGATAATTCTGTAAATTGA
1 GGGTAATTTGGTAATTTTACAAATCGA
* ** * *
33970978 TGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAATTTGGTAATTTTACAAATCGA
** *** * *
33971005 GGAAAAAACGGTAATTCTATAAATCGA
1 GGGTAATTTGGTAATTTTACAAATCGA
** * *
33971032 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAATTTGGTAATTTTACAAATCGA
* *
33971059 GGGTACTTTGGTAATTTTACAAATTGA
1 GGGTAATTTGGTAATTTTACAAATCGA
33971086 GGG
1 GGG
33971089 CATTTCAGTA
Statistics
Matches: 246, Mismatches: 47, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
26 4 0.02
27 235 0.96
28 7 0.03
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (27 bp):
GGGTAATTTGGTAATTTTACAAATCGA
Found at i:33971088 original size:54 final size:54
Alignment explanation
Indices: 33970836--33971088 Score: 197
Period size: 54 Copynumber: 4.7 Consensus size: 54
33970826 ATAATTTCAC
* * *** * *
33970836 AAATC-AGGAGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTAC
1 AAATCGAGG-GTAATTTGGTAATTTTACAAATTGA-GGGTAAAATGGTAATTCTAT
* * * * *
33970890 AAA-CTAGGGGTATTTTGGTAATTTTTCTAATCGAGGGTAAAATGGTAATTCTAT
1 AAATCGA-GGGTAATTTGGTAATTTTACAAATTGAGGGTAAAATGGTAATTCTAT
*** * * ** *
33970944 AAATCGAGGGTAAAACGATAATTCTGTAAATTGATGGTAAAATGGTAATTCTAT
1 AAATCGAGGGTAATTTGGTAATTTTACAAATTGAGGGTAAAATGGTAATTCTAT
** *** * * *
33970998 AAATCGAGGAAAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTAT
1 AAATCGAGGGTAATTTGGTAATTTTACAAATTGAGGGTAAAATGGTAATTCTAT
*
33971052 AAATCGAGGGTACTTTGGTAATTTTACAAATTGAGGG
1 AAATCGAGGGTAATTTGGTAATTTTACAAATTGAGGG
33971089 CATTTCAGTA
Statistics
Matches: 159, Mismatches: 36, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
53 1 0.01
54 153 0.96
55 5 0.03
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (54 bp):
AAATCGAGGGTAATTTGGTAATTTTACAAATTGAGGGTAAAATGGTAATTCTAT
Found at i:33972024 original size:6 final size:6
Alignment explanation
Indices: 33972013--33972045 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
33972003 CACCGTTAGG
*
33972013 GTAACA GTAACA GTAACA GTAACA GTAGCA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTA
33972046 CACAAAGTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:33975234 original size:39 final size:39
Alignment explanation
Indices: 33975153--33975407 Score: 361
Period size: 39 Copynumber: 6.6 Consensus size: 39
33975143 GGATTTTAAT
* * * *
33975153 CGGGCTAAGACCCGCAGGCCTT-GTG-TGAGATTTATATC
1 CGGGCTAAGTCCCGAAGGCATTCGTGCTGATA-TTATATC
* *
33975191 CGGGCTAAGTCCCAAAGGCATTCGTGCTGATATTATATA
1 CGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATC
* *
33975230 CGGGCTAAGTCCCGAAGGCATTCGTGCTAATATTATATT
1 CGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATC
* * *
33975269 CGGGTTAAGTCCCGAAGGCATTCGTACTGGTATTATATC
1 CGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATC
33975308 CGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATC
1 CGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATC
* *
33975347 CGGGCTAAGTCCCGAAGGCATTCATGCTGATGTTATATC
1 CGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATC
*
33975386 CGGGCTAAGTTCCGAAGGCATT
1 CGGGCTAAGTCCCGAAGGCATT
33975408 TGGGTTGGAA
Statistics
Matches: 195, Mismatches: 20, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
38 18 0.09
39 173 0.89
40 4 0.02
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATC
Found at i:33978943 original size:70 final size:70
Alignment explanation
Indices: 33978830--33978960 Score: 235
Period size: 70 Copynumber: 1.9 Consensus size: 70
33978820 CAAATATAGT
*
33978830 GATTGGTAGTAATTCCACATATGTTGGGGACTACCGTAGCTCTGTGTGAGCATCGAGGTATAAGT
1 GATTGGTAGTAATTCCACATATGTTGGGGACTACCGTAGCTCTGTGTGAGCATCGAAGTATAAGT
33978895 GTGGA
66 GTGGA
* *
33978900 GATTGGTAGTAATTCTACATATGTTGTGGACTACCGTAGCTCTGTGTGAGCATCGAAGTAT
1 GATTGGTAGTAATTCCACATATGTTGGGGACTACCGTAGCTCTGTGTGAGCATCGAAGTAT
33978961 GTGATTTTCC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 58 1.00
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (70 bp):
GATTGGTAGTAATTCCACATATGTTGGGGACTACCGTAGCTCTGTGTGAGCATCGAAGTATAAGT
GTGGA
Found at i:33981079 original size:15 final size:17
Alignment explanation
Indices: 33981059--33981091 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
33981049 TAAAAACATT
33981059 AAATTA-ATTTT-AAAA
1 AAATTATATTTTCAAAA
33981074 AAATTATATTTTCAAAA
1 AAATTATATTTTCAAAA
33981091 A
1 A
33981092 TCAATATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTATATTTTCAAAA
Found at i:33984066 original size:23 final size:24
Alignment explanation
Indices: 33984039--33984091 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 24
33984029 TTTTTCTCCC
33984039 CTTCTTTTCAATTTTTTTCTC-TT
1 CTTCTTTTCAATTTTTTTCTCATT
* **
33984062 TTTC-TTTCTTTTTTTTTCTCATT
1 CTTCTTTTCAATTTTTTTCTCATT
33984085 CTTCTTT
1 CTTCTTT
33984092 GATTTTTGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 14 0.58
23 8 0.33
24 2 0.08
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.74
Consensus pattern (24 bp):
CTTCTTTTCAATTTTTTTCTCATT
Found at i:33984097 original size:23 final size:22
Alignment explanation
Indices: 33984028--33984098 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 22
33984018 CACTCTCACA
** *
33984028 TTTTTTCTCCCCTTCTTTTCAAT
1 TTTTTTCTCTTCTTC-TTTCATT
* *
33984051 TTTTTTCTCTTTTTCTTTCTTT
1 TTTTTTCTCTTCTTCTTTCATT
*
33984073 TTTTTTCTCATTCTTCTTTGATT
1 TTTTTTCTC-TTCTTCTTTCATT
33984096 TTT
1 TTT
33984099 GCTTGCTGTC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 14 0.36
23 25 0.64
ACGTcount: A:0.06, C:0.21, G:0.01, T:0.72
Consensus pattern (22 bp):
TTTTTTCTCTTCTTCTTTCATT
Found at i:33991259 original size:20 final size:21
Alignment explanation
Indices: 33991204--33991260 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 21
33991194 TATTTATTAT
* *
33991204 TTATCATTATTATTCTATCAAA
1 TTATAATTATTATT-AATCAAA
33991226 TTATAATT-TATATTAAT-AAA
1 TTATAATTAT-TATTAATCAAA
*
33991246 TTATGATTATTATTA
1 TTATAATTATTATTA
33991261 TTGAAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 15 0.50
21 4 0.13
22 11 0.37
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (21 bp):
TTATAATTATTATTAATCAAA
Found at i:33999837 original size:53 final size:53
Alignment explanation
Indices: 33999756--33999906 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
33999746 CTTACACGGT
* *
33999756 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
33999811 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
* * *
33999864 TCACATTGTACCGATGCCATAGCCCAGCTAAGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
33999907 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:34005072 original size:23 final size:23
Alignment explanation
Indices: 34005038--34005083 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
34005028 TTTAGGTTTT
*
34005038 TTATTTTAATTTTAAAATTTTAA
1 TTATTTTAATTTTAAAATGTTAA
*
34005061 TTATTTTGATTTTAAAATGTTAA
1 TTATTTTAATTTTAAAATGTTAA
34005084 AATTCCCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (23 bp):
TTATTTTAATTTTAAAATGTTAA
Found at i:34008126 original size:48 final size:47
Alignment explanation
Indices: 34008043--34008135 Score: 125
Period size: 48 Copynumber: 2.0 Consensus size: 47
34008033 TGAGTTGAGC
* * * *
34008043 TCGAGCTTAGTATGAAATTTAGTAAATGAGCTTAATTGAGCTCGAAT
1 TCGAGCTTAGTATAAAATTGAGTAAACGAACTTAATTGAGCTCGAAT
34008090 TCGAGCTTAAGTATAAAAATTGA-TAAACGAACTTAATTGAGCTCGA
1 TCGAGCTT-AGTAT-AAAATTGAGTAAACGAACTTAATTGAGCTCGA
34008136 GCTCAAATAG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
47 8 0.20
48 26 0.65
49 6 0.15
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (47 bp):
TCGAGCTTAGTATAAAATTGAGTAAACGAACTTAATTGAGCTCGAAT
Found at i:34029173 original size:18 final size:18
Alignment explanation
Indices: 34029133--34029170 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
34029123 CAAATCAATA
34029133 ATTAATTAATTTTTTAAA-
1 ATTAATTAA-TTTTTAAAT
34029151 ATTAATTAA-TTTTAAAT
1 ATTAATTAATTTTTAAAT
34029168 ATT
1 ATT
34029171 TAAAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 3 0.16
18 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTAATTAATTTTTAAAT
Found at i:34036388 original size:12 final size:12
Alignment explanation
Indices: 34036373--34036398 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34036363 GTAAAATGGA
34036373 TATAAAAATATT
1 TATAAAAATATT
34036385 TATAAAAATATT
1 TATAAAAATATT
34036397 TA
1 TA
34036399 AAATTTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TATAAAAATATT
Found at i:34058571 original size:46 final size:46
Alignment explanation
Indices: 34058519--34058617 Score: 116
Period size: 46 Copynumber: 2.2 Consensus size: 46
34058509 TCTTTTCCCA
*
34058519 ATTTTACTTTAT-TTT-TAATTTTTAATTTTAAAAATTATG-CA-ATAAC
1 ATTTTACTTT-TCTTTAAAATTTTT-ATTTT--AAATTATGTCACATAAC
*
34058565 ATTTTACTTTTCTTTAAAATTTTTATTTTAAATTATGTCACATAAT
1 ATTTTACTTTTCTTTAAAATTTTTATTTTAAATTATGTCACATAAC
34058611 ATTTTAC
1 ATTTTAC
34058618 GTGACATTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
44 8 0.17
45 3 0.06
46 29 0.62
47 7 0.15
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.56
Consensus pattern (46 bp):
ATTTTACTTTTCTTTAAAATTTTTATTTTAAATTATGTCACATAAC
Found at i:34058628 original size:46 final size:46
Alignment explanation
Indices: 34058535--34058628 Score: 102
Period size: 46 Copynumber: 2.0 Consensus size: 46
34058525 CTTTATTTTT
* ** *
34058535 AATTTTTAATTTTAAAAATTATGCAATAACATTTTACTTTTCTTTAA
1 AATTTTTAATTTT-AAAATTATGCAATAACATTTTACGTGACATTAA
*
34058582 AATTTTT-ATTTT-AAATTATGTCACATAATATTTTACGTGACATTAA
1 AATTTTTAATTTTAAAATTATG-CA-ATAACATTTTACGTGACATTAA
34058628 A
1 A
34058629 TGATTAAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
44 8 0.20
45 2 0.05
46 23 0.57
47 7 0.17
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (46 bp):
AATTTTTAATTTTAAAATTATGCAATAACATTTTACGTGACATTAA
Found at i:34058879 original size:15 final size:15
Alignment explanation
Indices: 34058859--34058893 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
34058849 ATTCTGGTAG
* *
34058859 AATGTGATTCCTTGA
1 AATGTGATTACTAGA
34058874 AATGTGATTACTAGA
1 AATGTGATTACTAGA
34058889 AATGT
1 AATGT
34058894 AGTTACCATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (15 bp):
AATGTGATTACTAGA
Found at i:34065982 original size:30 final size:30
Alignment explanation
Indices: 34065917--34065983 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
34065907 ATTTGAACTA
* *
34065917 TAATTAAAATTTTACATATATAATTACACC
1 TAATTAAAATTTCACATATATAATTACAAC
* *
34065947 AAATTAAAA-TTCATATATATAATTACATAC
1 TAATTAAAATTTCACATATATAATTACA-AC
34065977 TAATTAA
1 TAATTAA
34065984 TTCTGTCTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 16 0.52
30 15 0.48
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (30 bp):
TAATTAAAATTTCACATATATAATTACAAC
Found at i:34066458 original size:55 final size:55
Alignment explanation
Indices: 34066347--34066465 Score: 150
Period size: 55 Copynumber: 2.1 Consensus size: 55
34066337 TCAAAAAGAT
* * * * *
34066347 AAATTTTAATAGTTGAGTGATTATTTTATAATTTTTTGTAGTTAGAAGACAAAAA
1 AAATATTAATAGCTGAGTGATCATTTTATAATTTTTTATAATTAGAAGACAAAAA
*
34066402 AAATATTAATAGCTGAGTGATCATTTTATAATTTTTTTATAATTAGGTA-ACGAAAAA
1 AAATATTAATAGCTGAGTGATCATTTTATAA-TTTTTTATAATTA-GAAGAC-AAAAA
34066459 AAATATT
1 AAATATT
34066466 TACTAATAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
55 28 0.51
56 13 0.24
57 14 0.25
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (55 bp):
AAATATTAATAGCTGAGTGATCATTTTATAATTTTTTATAATTAGAAGACAAAAA
Found at i:34066891 original size:39 final size:40
Alignment explanation
Indices: 34066840--34066927 Score: 115
Period size: 39 Copynumber: 2.2 Consensus size: 40
34066830 AAAAATTATA
* * * *
34066840 TTTAATACAATAAAACATTTATTATATTTAT-TTATATTT
1 TTTAATATAATAAAACAATTATTATATTTATGGTATAGTT
* *
34066879 TTTAATATAATAAAATAATTATTATATTTATGGTATCGTT
1 TTTAATATAATAAAACAATTATTATATTTATGGTATAGTT
34066919 TTTAATATA
1 TTTAATATA
34066928 GATATTTTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 28 0.67
40 14 0.33
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.52
Consensus pattern (40 bp):
TTTAATATAATAAAACAATTATTATATTTATGGTATAGTT
Found at i:34071204 original size:29 final size:30
Alignment explanation
Indices: 34071171--34071229 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
34071161 TATGGTTTAA
* *
34071171 TGTGTAATTGTATACAT-AAATTTTGATTT
1 TGTGTAATTGTAAACATGAAATTTTAATTT
*
34071200 TGTGTAATTTTAAACATGAAATTTTAATTT
1 TGTGTAATTGTAAACATGAAATTTTAATTT
34071230 GATCTAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.51
Consensus pattern (30 bp):
TGTGTAATTGTAAACATGAAATTTTAATTT
Found at i:34072742 original size:17 final size:17
Alignment explanation
Indices: 34072720--34072752 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34072710 AAGTTTTTGA
*
34072720 TTAGATTGGTATTACCC
1 TTAGATTGCTATTACCC
34072737 TTAGATTGCTATTACC
1 TTAGATTGCTATTACC
34072753 TTTAACCGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.42
Consensus pattern (17 bp):
TTAGATTGCTATTACCC
Found at i:34077339 original size:16 final size:15
Alignment explanation
Indices: 34077312--34077341 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
34077302 AAATTGGAAA
34077312 GATAAAAATTAAAAG
1 GATAAAAATTAAAAG
34077327 GATAAAAAGTTAAAA
1 GATAAAAA-TTAAAA
34077342 AGGAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (15 bp):
GATAAAAATTAAAAG
Found at i:34079409 original size:250 final size:250
Alignment explanation
Indices: 34078968--34079467 Score: 937
Period size: 250 Copynumber: 2.0 Consensus size: 250
34078958 GGAAGGATTA
* * *
34078968 GCACCCTTGTAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTCATATCGAAAATTGA
1 GCACCCTCGTAACGCCCAAAATTAGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
*
34079033 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
66 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGAA
*
34079098 TATTAAGATTTTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
131 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
*
34079163 AACCTTCGATGCCCAAAATCATCTCATGATTTCTAAAACTCATGCATTGAAATTT
196 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
*
34079218 GCACCCTCGTAATGCCCAAAATTAGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
1 GCACCCTCGTAACGCCCAAAATTAGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
34079283 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGAA
66 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGAA
34079348 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
131 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
34079413 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
196 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
34079468 TAAAAAGGAT
Statistics
Matches: 243, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
250 243 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.32
Consensus pattern (250 bp):
GCACCCTCGTAACGCCCAAAATTAGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGAA
TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
Found at i:34080546 original size:3 final size:3
Alignment explanation
Indices: 34080540--34080570 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
34080530 TAAAGTAGAA
34080540 AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
34080571 GAAAATGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:34080557 original size:13 final size:13
Alignment explanation
Indices: 34080539--34080570 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
34080529 ATAAAGTAGA
34080539 AAATAATAATAAT
1 AAATAATAATAAT
34080552 AAATAATAATAAT
1 AAATAATAATAAT
34080565 -AATAAT
1 AAATAAT
34080571 GAAAATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:34082802 original size:86 final size:86
Alignment explanation
Indices: 34082700--34082976 Score: 335
Period size: 86 Copynumber: 3.2 Consensus size: 86
34082690 ATTTGGTCTA
** **
34082700 TTACCCTACTTTTTAGGGGTTTAAGACCCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGGGTT
1 TTACCCTACTGCTTAGGGGTTTAAGACCCTTTGTCTTCGATCTGTTTCCCTACTGCTTAGGGGTT
34082765 AAGATCTGGAAATTCAGCTTG
66 AAGATCTGGAAATTCAGCTTG
* ** *
34082786 TTACCCTACTGCTTAGGGGTTTAAGGCTTTTTGTCTTCGATCTG-CTCCACTACTGCTTAGGGAG
1 TTACCCTACTGCTTAGGGGTTTAAGACCCTTTGTCTTCGATCTGTTTCC-CTACTGCTTAGGG-G
* * * *
34082850 ATAAGATCT-GCAATT-TGGTCTG
64 TTAAGATCTGGAAATTCAGCT-TG
* * * *
34082872 TTTCCCTACTGCTTAAGGGTTTAAGACCCTTTGTATTCGATCTGTTTTCCTACTGCTTAAGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGACCCTTTGTCTTCGATCTGTTTCCCTACTGCTT-AGGGGT
* *
34082937 TAAGATTTGGAAATTCAGCCTG
65 TAAGATCTGGAAATTCAGCTTG
34082959 TTACCCTACTGCTTAGGG
1 TTACCCTACTGCTTAGGG
34082977 AGATAAAATC
Statistics
Matches: 156, Mismatches: 28, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
85 5 0.03
86 112 0.72
87 38 0.24
88 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (86 bp):
TTACCCTACTGCTTAGGGGTTTAAGACCCTTTGTCTTCGATCTGTTTCCCTACTGCTTAGGGGTT
AAGATCTGGAAATTCAGCTTG
Found at i:34082981 original size:129 final size:128
Alignment explanation
Indices: 34082835--34083104 Score: 450
Period size: 129 Copynumber: 2.1 Consensus size: 128
34082825 ATCTGCTCCA
* * *
34082835 CTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTTCCCTACTGCTTAAGGGTTTAAGACC
1 CTACTGCTTAGGGAGATAAAATCTGCAATTTGGTCTGTTACCCTACTGCGTAAGGGTTTAAGACC
* * *
34082900 CTTTGTATTCGATCTGTTTTCCTACTGCTTAAGGGGTTAAGATTTGGAAATTCAGCCTGTTACC
66 CTTCGTATTCGATCTGTTTCCCTACTGCTT-AGGGGTTAAGATCTGGAAATTCAGCCTGTTACC
* *
34082964 CTACTGCTTAGGGAGATAAAATCTGCAATTTGGTCTGTTACCCTACTTCGTAGGGGTTTAAGACC
1 CTACTGCTTAGGGAGATAAAATCTGCAATTTGGTCTGTTACCCTACTGCGTAAGGGTTTAAGACC
*
34083029 CTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGTTAAGATCTGGAAATTCAGCCTGTTACC
66 CTTCGTATTCGATCTGTTTCCCTACTGCTTAGGGGTTAAGATCTGGAAATTCAGCCTGTTACC
34083092 CTACTGCTTAGGG
1 CTACTGCTTAGGG
34083105 GTTTAAGGCT
Statistics
Matches: 132, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
128 45 0.34
129 87 0.66
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (128 bp):
CTACTGCTTAGGGAGATAAAATCTGCAATTTGGTCTGTTACCCTACTGCGTAAGGGTTTAAGACC
CTTCGTATTCGATCTGTTTCCCTACTGCTTAGGGGTTAAGATCTGGAAATTCAGCCTGTTACC
Found at i:34083039 original size:215 final size:214
Alignment explanation
Indices: 34082741--34083191 Score: 518
Period size: 215 Copynumber: 2.1 Consensus size: 214
34082731 CATCTTCGAT
* * *
34082741 CTGTTTCCCTACTGCTTAGGGGTTAAGATCTGGAAATTCAGCTTGTTACCCTACTGCTTAGGGGT
1 CTGTTTCCCTACTGCTTAGGGGATAAAATCTGGAAATTCAGCTTGTTACCCTACTGCGTAGGGGT
* ** * * ** *
34082806 TTAAGGCTTTTTGTCTTCGATCTG-CTCCACTACTGCTTAGGGAGATAAGATCT-GCAATTTGGT
66 TTAAGACCCTTCGTCTTCGATCTGTCTCC-CTACTGCTTAGGG-GATAAGATCTGGAAATTCAGC
* * *
34082869 CTGTTTCCCTACTGCTTAAGGGTTTAAGACCCTTTGTATTCGATCTGTTTTC-CTACTGCTTAAG
129 CTGTTACCCTACTGCTTAAGGGTTTAAGACCCTTTGTATTCGATCTG-CTCCACTACTGCTT-AG
* *
34082933 GG-GTTAAGATTTGGAAATTCAGC
192 GGAGATAAGATCT-GAAATTCAGC
* * * * *
34082956 CTGTTACCCTACTGCTTAGGGAGATAAAATCT-GCAATT-TGGTCTGTTACCCTACTTCGTAGGG
1 CTGTTTCCCTACTGCTTAGGG-GATAAAATCTGGAAATTCAGCT-TGTTACCCTACTGCGTAGGG
* *
34083019 GTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGTTAAGATCTGGAAATTCAGC
64 GTTTAAGACCCTTCGTCTTCGATCTGTCTCCCTACTGCTTAGGGGATAAGATCTGGAAATTCAGC
* * * *
34083084 CTGTTACCCTACTGCTTAGGGGTTTAAGGCTCTTTGTCTTCGATCTGCTCCACTACTGCTTAGGG
129 CTGTTACCCTACTGCTTAAGGGTTTAAGACCCTTTGTATTCGATCTGCTCCACTACTGCTTAGGG
* ** *
34083149 AGATAAGATCTGCAATTTGGT
194 AGATAAGATCTGAAATTCAGC
34083170 CTGTTTCCCTACTGCTTAGGGG
1 CTGTTTCCCTACTGCTTAGGGG
34083192 TTTAAGACCT
Statistics
Matches: 198, Mismatches: 32, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
213 1 0.01
214 43 0.22
215 143 0.72
216 11 0.06
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.36
Consensus pattern (214 bp):
CTGTTTCCCTACTGCTTAGGGGATAAAATCTGGAAATTCAGCTTGTTACCCTACTGCGTAGGGGT
TTAAGACCCTTCGTCTTCGATCTGTCTCCCTACTGCTTAGGGGATAAGATCTGGAAATTCAGCCT
GTTACCCTACTGCTTAAGGGTTTAAGACCCTTTGTATTCGATCTGCTCCACTACTGCTTAGGGAG
ATAAGATCTGAAATTCAGC
Found at i:34083052 original size:44 final size:43
Alignment explanation
Indices: 34082703--34083244 Score: 307
Period size: 42 Copynumber: 12.6 Consensus size: 43
34082693 TGGTCTATTA
** * *
34082703 CCCTACTTTTTAGGGGTTTAAGACCCTTCATCTTCGATCTGTTT
1 CCCTACTGCTTAGGGGTTTAAGA-TCTTCGTCTTCGATCTGTTT
* ** * *
34082747 CCCTACTGCTTAGGGG-TTAAGATC-TGGAAATTC-AGCTTGTTA
1 CCCTACTGCTTAGGGGTTTAAGATCTTCG-TCTTCGATC-TGTTT
* * * *
34082789 CCCTACTGCTTAGGGGTTTAAGGCTTTTTGTCTTCGATCTG-CT
1 CCCTACTGCTTAGGGGTTTAA-GATCTTCGTCTTCGATCTGTTT
* * * *
34082832 CCACTACTGCTTAGGGAG-ATAAGATCTGCAAT-TT-GGTCTGTTT
1 CC-CTACTGCTTAGGG-GTTTAAGATCTTC-GTCTTCGATCTGTTT
* * * *
34082875 CCCTACTGCTTAAGGGTTTAAGACCCTTTGTATTCGATCTGTTT
1 CCCTACTGCTTAGGGGTTTAAGA-TCTTCGTCTTCGATCTGTTT
* * ** * *
34082919 TCCTACTGCTTAAGGGG-TTAAGAT-TTGGAAATTC-AGCCTGTTA
1 CCCTACTGCTT-AGGGGTTTAAGATCTTCG-TCTTCGA-TCTGTTT
* * * * * *
34082962 CCCTACTGCTTAGGGAG-ATAAAATCTGCAAT-TT-GGTCTGTTA
1 CCCTACTGCTTAGGG-GTTTAAGATCTTC-GTCTTCGATCTGTTT
* * *
34083004 CCCTACTTCGTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTT
1 CCCTACTGCTTAGGGGTTTAAGA-TCTTCGTCTTCGATCTGTTT
* ** * *
34083048 CCCTACTGCTTAGGGG-TTAAGATC-TGGAAATTC-AGCCTGTTA
1 CCCTACTGCTTAGGGGTTTAAGATCTTCG-TCTTCGA-TCTGTTT
* * *
34083090 CCCTACTGCTTAGGGGTTTAAGGCTCTTTGTCTTCGATCTG-CT
1 CCCTACTGCTTAGGGGTTTAA-GATCTTCGTCTTCGATCTGTTT
* * * *
34083133 CCACTACTGCTTAGGGAG-ATAAGATCTGCAAT-TT-GGTCTGTTT
1 CC-CTACTGCTTAGGG-GTTTAAGATCTTC-GTCTTCGATCTGTTT
*
34083176 CCCTACTGCTTAGGGGTTTAAGACCTTCGTCTTCGATCTGTTT
1 CCCTACTGCTTAGGGGTTTAAGATCTTCGTCTTCGATCTGTTT
34083219 CCCTACTGCTTAAGGGG-TTAAGATCT
1 CCCTACTGCTT-AGGGGTTTAAGATCT
34083245 GGAAATTCAG
Statistics
Matches: 374, Mismatches: 85, Indels: 79
0.70 0.16 0.15
Matches are distributed among these distances:
41 10 0.03
42 132 0.35
43 104 0.28
44 115 0.31
45 13 0.03
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (43 bp):
CCCTACTGCTTAGGGGTTTAAGATCTTCGTCTTCGATCTGTTT
Found at i:34083060 original size:86 final size:86
Alignment explanation
Indices: 34082956--34083245 Score: 390
Period size: 86 Copynumber: 3.4 Consensus size: 86
34082946 GAAATTCAGC
* * * *
34082956 CTGTTACCCTACTGCTTAGGGAGATAAAATCTGCAATTTGGTCTGTTACCCTACTTCGTAGGGGT
1 CTGTTTCCCTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGT
34083021 TTAAGACCCTTCGTCTTCGAT
66 TTAAGACCCTTCGTCTTCGAT
* * ** *
34083042 CTGTTTCCCTACTGCTTAGGG-GTTAAGATCTGGAAATTCAGCCTGTTACCCTACTGCTTAGGGG
1 CTGTTTCCCTACTGCTTAGGGAGATAAGATCT-GCAATTTGGTCTGTTACCCTACTGCTTAGGGG
* * *
34083106 TTTAAGGCTCTTTGTCTTCGAT
65 TTTAAGACCCTTCGTCTTCGAT
* *
34083128 CTG-CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTTCCCTACTGCTTAGGGG
1 CTGTTTCC-CTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGG
34083192 TTTAAGA-CCTTCGTCTTCGAT
65 TTTAAGACCCTTCGTCTTCGAT
*
34083213 CTGTTTCCCTACTGCTTAAGGG-GTTAAGATCTG
1 CTGTTTCCCTACTGCTT-AGGGAGATAAGATCTG
34083246 GAAATTCAGC
Statistics
Matches: 175, Mismatches: 24, Indels: 11
0.83 0.11 0.05
Matches are distributed among these distances:
85 45 0.26
86 121 0.69
87 9 0.05
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (86 bp):
CTGTTTCCCTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGT
TTAAGACCCTTCGTCTTCGAT
Found at i:34083162 original size:172 final size:172
Alignment explanation
Indices: 34082964--34083274 Score: 552
Period size: 172 Copynumber: 1.8 Consensus size: 172
34082954 GCCTGTTACC
*
34082964 CTACTGCTTAGGGAGATAAAATCTGCAATTTGGTCTGTTACCCTACTTCGTAGGGGTTTAAGACC
1 CTACTGCTTAGGGAGATAAAATCTGCAATTTGGTCTGTTACCCTACTGCGTAGGGGTTTAAGA-C
*
34083029 CTTCGTCTTCGATCTGTTTCCCTACTGCTT-AGGGGTTAAGATCTGGAAATTCAGCCTGTTACCC
65 CTTCGTCTTCGATCTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGGAAATTCAGCCTATTACCC
*
34083093 TACTGCTTAGGGGTTTAAGGCTCTTTGTCTTCGATCTGCTCCA
130 TACTACTTAGGGGTTTAAGGCTCTTTGTCTTCGATCTGCTCCA
* * *
34083136 CTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTTCCCTACTGCTTAGGGGTTTAAGACC
1 CTACTGCTTAGGGAGATAAAATCTGCAATTTGGTCTGTTACCCTACTGCGTAGGGGTTTAAGACC
34083201 TTCGTCTTCGATCTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGGAAATTCAGCCTATTACCCT
66 TTCGTCTTCGATCTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGGAAATTCAGCCTATTACCCT
34083266 ACTACTTAG
131 ACTACTTAG
34083275 AGGGACAGGA
Statistics
Matches: 132, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
171 31 0.23
172 101 0.77
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (172 bp):
CTACTGCTTAGGGAGATAAAATCTGCAATTTGGTCTGTTACCCTACTGCGTAGGGGTTTAAGACC
TTCGTCTTCGATCTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGGAAATTCAGCCTATTACCCT
ACTACTTAGGGGTTTAAGGCTCTTTGTCTTCGATCTGCTCCA
Found at i:34083195 original size:301 final size:300
Alignment explanation
Indices: 34082649--34083274 Score: 1056
Period size: 301 Copynumber: 2.1 Consensus size: 300
34082639 ATGTACACTC
* * *** **
34082649 TTCAGCCTACT-CCACTATTGCTTAGGGAGATAGGGTCTACAATTTGGTCTATTACCCTACTTTT
1 TTCAGCCTATTACC-CTACTGCTTAGGGAGATAAAATCTACAATTTGGTCTATTACCCTACTTCG
34082713 TAGGGGTTTAAGACCCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGGGTTAAGATCTGGAAAT
65 TAGGGGTTTAAGACCCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGGGTTAAGATCTGGAAAT
* *
34082778 TCAGCTTGTTACCCTACTGCTTAGGGGTTTAAGGCTTTTTGTCTTCGATCTGCTCCACTACTGCT
130 TCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCTTTGTCTTCGATCTGCTCCACTACTGCT
*
34082843 TAGGGAGATAAGATCTGCAATTTGGTCTGTTTCCCTACTGCTTAAGGGTTTAAGACCCTTTGTAT
195 TAGGGAGATAAGATCTGCAATTTGGTCTGTTTCCCTACTGCTTAAGGGTTTAAGA-CCTTCGTAT
* *
34082908 TCGATCTGTTTTCCTACTGCTTAAGGGGTTAAGATTTGGAAA
259 TCGATCTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGGAAA
* * *
34082950 TTCAGCCTGTTACCCTACTGCTTAGGGAGATAAAATCTGCAATTTGGTCTGTTACCCTACTTCGT
1 TTCAGCCTATTACCCTACTGCTTAGGGAGATAAAATCTACAATTTGGTCTATTACCCTACTTCGT
*
34083015 AGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGTTAAGATCTGGAAATT
66 AGGGGTTTAAGACCCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGGGTTAAGATCTGGAAATT
34083080 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCTTTGTCTTCGATCTGCTCCACTACTGCTT
131 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCTTTGTCTTCGATCTGCTCCACTACTGCTT
* *
34083145 AGGGAGATAAGATCTGCAATTTGGTCTGTTTCCCTACTGCTTAGGGGTTTAAGACCTTCGTCTTC
196 AGGGAGATAAGATCTGCAATTTGGTCTGTTTCCCTACTGCTTAAGGGTTTAAGACCTTCGTATTC
34083210 GATCTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGGAAA
261 GATCTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGGAAA
*
34083250 TTCAGCCTATTACCCTACTACTTAG
1 TTCAGCCTATTACCCTACTGCTTAG
34083275 AGGGACAGGA
Statistics
Matches: 304, Mismatches: 20, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
300 70 0.23
301 232 0.76
302 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (300 bp):
TTCAGCCTATTACCCTACTGCTTAGGGAGATAAAATCTACAATTTGGTCTATTACCCTACTTCGT
AGGGGTTTAAGACCCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGGGTTAAGATCTGGAAATT
CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCTTTGTCTTCGATCTGCTCCACTACTGCTT
AGGGAGATAAGATCTGCAATTTGGTCTGTTTCCCTACTGCTTAAGGGTTTAAGACCTTCGTATTC
GATCTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGGAAA
Found at i:34083225 original size:215 final size:214
Alignment explanation
Indices: 34082740--34083241 Score: 500
Period size: 215 Copynumber: 2.3 Consensus size: 214
34082730 TCATCTTCGA
* * * *
34082740 TCTGTTTCCCTACTGCTTAGGGGTTAAGATC-TGGAAATTC-AGCTTGTTACCCTACTGCTTAGG
1 TCTGTTTCCCTACTGCTTAGGGGTTAAGATCTTCG--TTTCGATC-TGTTACCCTACTGCGTAGG
* ** * * **
34082803 GGTTTAAGGCTTTTTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTGG
63 GGTTTAAGACCCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTCAG
* * * *
34082868 TCTGTTTCCCTACTGCTTAAGGGTTTAAGACCCTTTGTATTCGATCTGTTTTCCTACTGCTTAAG
128 CCTGTTACCCTACTGCTTAAGGGTTTAAGACCCTTTGTATTCGATCTGTCTCCCTACTGCTTAAG
* *
34082933 GGGTTAAGATTTGGAAATTCAG
193 GGGATAAGATCTGGAAATTCAG
* * * * * * * *
34082955 CCTGTTACCCTACTGCTTAGGGAGATAAAATCTGCAATTT-GGTCTGTTACCCTACTTCGTAGGG
1 TCTGTTTCCCTACTGCTTAGGG-GTTAAGATCTTC-GTTTCGATCTGTTACCCTACTGCGTAGGG
* *
34083019 GTTTAAGACCCTTCGTCTTCGATCTGTTTCC-CTACTGCTTAGGG-GTTAAGATCTGGAAATTCA
64 GTTTAAGACCCTTCGTCTTCGATCTG-CTCCACTACTGCTTAGGGAGATAAGATCT-GAAATTCA
* * * *
34083082 GCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCTTTGTCTTCGATCTG-CTCCACTACTGCTT-
127 GCCTGTTACCCTACTGCTTAAGGGTTTAAGACCCTTTGTATTCGATCTGTCTCC-CTACTGCTTA
* **
34083145 AGGGAGATAAGATCT-GCAATTTGG
191 AGGG-GATAAGATCTGGAAATTCAG
* * *
34083169 TCTGTTTCCCTACTGCTTAGGGGTTTAAGACCTTCGTCTTCGATCTGTTTCCCTACTGCTTAAGG
1 TCTGTTTCCCTACTGCTTAGGGG-TTAAGATCTTCGT-TTCGATCTGTTACCCTACTGCGT-AGG
34083234 GG-TTAAGA
63 GGTTTAAGA
34083242 TCTGGAAATT
Statistics
Matches: 230, Mismatches: 45, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
213 2 0.01
214 50 0.22
215 160 0.70
216 18 0.08
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (214 bp):
TCTGTTTCCCTACTGCTTAGGGGTTAAGATCTTCGTTTCGATCTGTTACCCTACTGCGTAGGGGT
TTAAGACCCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTCAGCCT
GTTACCCTACTGCTTAAGGGTTTAAGACCCTTTGTATTCGATCTGTCTCCCTACTGCTTAAGGGG
ATAAGATCTGGAAATTCAG
Found at i:34086053 original size:17 final size:17
Alignment explanation
Indices: 34086031--34086064 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
34086021 TAGGTTAGGG
34086031 TTTGATGGATTAATAGA
1 TTTGATGGATTAATAGA
34086048 TTTGATGGATTAATAGA
1 TTTGATGGATTAATAGA
34086065 GTATCAGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (17 bp):
TTTGATGGATTAATAGA
Found at i:34088358 original size:18 final size:18
Alignment explanation
Indices: 34088335--34088391 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
34088325 TACGACCGTT
34088335 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
34088353 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* *
34088371 TACGGTACTGTTCACGTA
1 TACGGCACTATTCACGTA
34088389 TAC
1 TAC
34088392 AGTAGTTGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:34095741 original size:18 final size:17
Alignment explanation
Indices: 34095709--34095768 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 17
34095699 ATTTATCGTA
34095709 ATAAATAATTTAAAAATT
1 ATAAA-AATTTAAAAATT
*
34095727 ATAAAAATTTCAAAAAGT
1 ATAAAAATTT-AAAAATT
* * *
34095745 AAAAAAAATTATAAATT
1 ATAAAAATTTAAAAATT
34095762 ATAAAAA
1 ATAAAAA
34095769 GTTCATAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
17 16 0.46
18 19 0.54
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
ATAAAAATTTAAAAATT
Found at i:34095776 original size:18 final size:18
Alignment explanation
Indices: 34095722--34095777 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
34095712 AATAATTTAA
* *
34095722 AAATTATAAAAATTTCAA
1 AAATTATAAAAAATTCAT
* *
34095740 AAAGTAAAAAAAATT-AT
1 AAATTATAAAAAATTCAT
*
34095757 AAATTATAAAAAGTTCAT
1 AAATTATAAAAAATTCAT
34095775 AAA
1 AAA
34095778 ACTTTTTACA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 13 0.43
18 17 0.57
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATTATAAAAAATTCAT
Found at i:34100086 original size:5 final size:5
Alignment explanation
Indices: 34100060--34100122 Score: 63
Period size: 5 Copynumber: 11.8 Consensus size: 5
34100050 ATGTGTTAAA
* * *
34100060 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATAGT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
34100109 ATATT ATATT ATAT
1 ATATT ATATT ATAT
34100123 AAATAAGTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
5 37 0.74
6 9 0.18
7 4 0.08
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (5 bp):
ATATT
Found at i:34101426 original size:30 final size:30
Alignment explanation
Indices: 34101392--34101451 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
34101382 TTATTTATTA
*
34101392 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
*
34101422 TTAATTTTATTATTATTTTAAAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
34101452 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:34102371 original size:173 final size:173
Alignment explanation
Indices: 34102070--34102416 Score: 676
Period size: 173 Copynumber: 2.0 Consensus size: 173
34102060 AGCATCAACA
* *
34102070 GATGTTTGATTTCATTCAACAATTTGTTAAGAGAATGTTTATAACCACATTGATCAAGAGACATA
1 GATGTGTGATTCCATTCAACAATTTGTTAAGAGAATGTTTATAACCACATTGATCAAGAGACATA
34102135 TATGGGTACATTGTGGAACAAGCTTGAAGACTTGTATTCTTCAAAGTCCGGTAATAACAAGTTGT
66 TATGGGTACATTGTGGAACAAGCTTGAAGACTTGTATTCTTCAAAGTCCGGTAATAACAAGTTGT
34102200 TCATGCTTAAGAGAATAATGGCATTAAGTTACAAGGAAGAGAC
131 TCATGCTTAAGAGAATAATGGCATTAAGTTACAAGGAAGAGAC
34102243 GATGTGTGATTCCATTCAACAATTTGTTAAGAGAATGTTTATAACCACATTGATCAAGAGACATA
1 GATGTGTGATTCCATTCAACAATTTGTTAAGAGAATGTTTATAACCACATTGATCAAGAGACATA
34102308 TATGGGTACATTGTGGAACAAGCTTGAAGACTTGTATTCTTCAAAGTCCGGTAATAACAAGTTGT
66 TATGGGTACATTGTGGAACAAGCTTGAAGACTTGTATTCTTCAAAGTCCGGTAATAACAAGTTGT
34102373 TCATGCTTAAGAGAATAATGGCATTAAGTTACAAGGAAGAGAC
131 TCATGCTTAAGAGAATAATGGCATTAAGTTACAAGGAAGAGAC
34102416 G
1 G
34102417 TCTATAGTCG
Statistics
Matches: 172, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
173 172 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (173 bp):
GATGTGTGATTCCATTCAACAATTTGTTAAGAGAATGTTTATAACCACATTGATCAAGAGACATA
TATGGGTACATTGTGGAACAAGCTTGAAGACTTGTATTCTTCAAAGTCCGGTAATAACAAGTTGT
TCATGCTTAAGAGAATAATGGCATTAAGTTACAAGGAAGAGAC
Found at i:34105049 original size:29 final size:30
Alignment explanation
Indices: 34104996--34105055 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 30
34104986 GATTCATCCA
34104996 TGGAAAATAAAATAAAAAAAGGATGA-AAT
1 TGGAAAATAAAATAAAAAAAGGATGATAAT
*
34105025 TGGAAAGTGAAAA-AAATAAAA-GATGATAAT
1 TGGAAAAT-AAAATAAA-AAAAGGATGATAAT
34105055 T
1 T
34105056 AATTAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.62, C:0.00, G:0.18, T:0.20
Consensus pattern (30 bp):
TGGAAAATAAAATAAAAAAAGGATGATAAT
Found at i:34106201 original size:26 final size:26
Alignment explanation
Indices: 34106136--34106202 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
34106126 TGGCTATCTA
*
34106136 GAGC-TCCTGATTAATGGCACTTTGT
1 GAGCTTCCTGATTAAAGGCACTTTGT
* * *
34106161 GAGCTTCCCGTTTAAAGGCTCTTTGT
1 GAGCTTCCTGATTAAAGGCACTTTGT
*
34106187 GAGCTTCCTAATTAAA
1 GAGCTTCCTGATTAAA
34106203 AGTTCTATGT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
25 4 0.12
26 30 0.88
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (26 bp):
GAGCTTCCTGATTAAAGGCACTTTGT
Found at i:34106308 original size:26 final size:26
Alignment explanation
Indices: 34106276--34106332 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
34106266 CTTCCTAAAA
34106276 GGCTCTTTATGAGCTTCCCGATTA-AT
1 GGCTCTTTATGAGCTTCCCG-TTATAT
* *
34106302 GGCTCTTTGTGAGCTTCCTGTTATAT
1 GGCTCTTTATGAGCTTCCCGTTATAT
34106328 GGCTC
1 GGCTC
34106333 GAGAGAGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 3 0.11
26 25 0.89
ACGTcount: A:0.14, C:0.23, G:0.23, T:0.40
Consensus pattern (26 bp):
GGCTCTTTATGAGCTTCCCGTTATAT
Found at i:34110689 original size:5 final size:5
Alignment explanation
Indices: 34110679--34110703 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
34110669 ACATTGCTTA
34110679 ACAAC ACAAC ACAAC ACAAC ACAAC
1 ACAAC ACAAC ACAAC ACAAC ACAAC
34110704 TCAAAAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.40, G:0.00, T:0.00
Consensus pattern (5 bp):
ACAAC
Found at i:34121583 original size:15 final size:13
Alignment explanation
Indices: 34121551--34121575 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34121541 TTATATAGTA
34121551 AAATATTTAAAAT
1 AAATATTTAAAAT
34121564 AAATATTTAAAA
1 AAATATTTAAAA
34121576 AATAAATAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATATTTAAAAT
Found at i:34121725 original size:20 final size:21
Alignment explanation
Indices: 34121700--34121739 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
34121690 TTAATAAAAA
34121700 AATAATGTTT-AATTATGTTT
1 AATAATGTTTCAATTATGTTT
*
34121720 AATAATGTTTCAATTTTGTT
1 AATAATGTTTCAATTATGTT
34121740 GTTGATTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.55
Consensus pattern (21 bp):
AATAATGTTTCAATTATGTTT
Found at i:34122727 original size:22 final size:22
Alignment explanation
Indices: 34122701--34122749 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
34122691 AAAAAAGGTG
*
34122701 AAATTACA-AAAATTATCAAAA
1 AAATTACAGAAAAATATCAAAA
*
34122722 CAAATT-CAGAAAAATCTCAAAA
1 -AAATTACAGAAAAATATCAAAA
34122744 AAATTA
1 AAATTA
34122750 AAATTTCAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.22
Consensus pattern (22 bp):
AAATTACAGAAAAATATCAAAA
Found at i:34125073 original size:32 final size:32
Alignment explanation
Indices: 34125031--34125152 Score: 172
Period size: 32 Copynumber: 3.7 Consensus size: 32
34125021 CATTATTTTG
*
34125031 TTGCAGGGAATCTTTCCTGTTCACATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCACATCATTTC
* * *
34125063 TTGCAAGGAATCTCTCCTGTTCACGGATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCAC--ATCA-TTTC
*
34125098 TTGCAGGGAATCTCTCCTATTCACATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCACATCATTTC
34125130 TTGCAGGGAATCTCTCCTGTTCA
1 TTGCAGGGAATCTCTCCTGTTCA
34125153 TGTATTATTT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
32 47 0.60
33 3 0.04
34 3 0.04
35 25 0.32
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.39
Consensus pattern (32 bp):
TTGCAGGGAATCTCTCCTGTTCACATCATTTC
Found at i:34125130 original size:67 final size:67
Alignment explanation
Indices: 34125022--34125162 Score: 237
Period size: 67 Copynumber: 2.1 Consensus size: 67
34125012 CATGTGCATC
* *
34125022 ATTATTTTGTTGCAGGGAATCTTTCCTGTTCACATCATTTCTTGCAAGGAATCTCTCCTGTTCAC
1 ATTATTTTGTTGCAGGGAATCTCTCCTATTCACATCATTTCTTGCAAGGAATCTCTCCTGTTCAC
34125087 GG
66 GG
* *
34125089 ATTATTTTGTTGCAGGGAATCTCTCCTATTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCAT
1 ATTATTTTGTTGCAGGGAATCTCTCCTATTCACATCATTTCTTGCAAGGAATCTCTCCTGTTCAC
*
34125154 GT
66 GG
34125156 ATTATTT
1 ATTATTT
34125163 CTTTTTGGAC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (67 bp):
ATTATTTTGTTGCAGGGAATCTCTCCTATTCACATCATTTCTTGCAAGGAATCTCTCCTGTTCAC
GG
Found at i:34142296 original size:20 final size:20
Alignment explanation
Indices: 34142271--34142322 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
34142261 TTCCTCCTAG
34142271 AATGATAAACAACCACGTAA
1 AATGATAAACAACCACGTAA
34142291 AATGATAAACAACCACGTAA
1 AATGATAAACAACCACGTAA
34142311 AATGATAAACAA
1 AATGATAAACAA
34142323 ACCTTAATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.58, C:0.17, G:0.10, T:0.15
Consensus pattern (20 bp):
AATGATAAACAACCACGTAA
Found at i:34147275 original size:31 final size:30
Alignment explanation
Indices: 34147236--34147295 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
34147226 TTTTTTGTCA
* *
34147236 CAAGTGGTACTTAAACTATATTTTATTACT
1 CAAGTGGTACCTAAACTATATTTCATTACT
* *
34147266 CAAGATGGTACCTAAATTATGTTTCATTAC
1 CAAG-TGGTACCTAAACTATATTTCATTAC
34147296 CCAAATGACC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (30 bp):
CAAGTGGTACCTAAACTATATTTCATTACT
Found at i:34160484 original size:40 final size:40
Alignment explanation
Indices: 34160401--34160663 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
34160391 TTGAATGCTG
* * * * * *
34160401 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
34160441 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
34160481 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
34160521 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
34160561 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
34160601 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
34160640 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
34160664 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:34160683 original size:79 final size:80
Alignment explanation
Indices: 34160440--34160698 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
34160430 AAGTGAATAT
* * * * * *
34160440 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
34160504 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
34160520 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
34160585 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
34160600 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
34160664 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
34160679 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
34160699 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:34168436 original size:40 final size:40
Alignment explanation
Indices: 34168353--34168615 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
34168343 TTGAATGCTG
* * * * * *
34168353 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
34168393 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
34168433 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
34168473 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
34168513 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
34168553 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
34168592 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
34168616 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:34168635 original size:79 final size:80
Alignment explanation
Indices: 34168392--34168650 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
34168382 AAGTGAATAT
* * * * * *
34168392 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
34168456 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
34168472 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
34168537 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
34168552 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
34168616 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
34168631 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
34168651 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:34172417 original size:34 final size:34
Alignment explanation
Indices: 34172374--34172439 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
34172364 TATTGATCAA
*
34172374 AGGGATGATTACAATGCTTTATCAAAGTCTCTAT
1 AGGGATGATTACAATGCTTCATCAAAGTCTCTAT
* *
34172408 AGGGATGATTATAGTGCTTCATCAAAGTCTCT
1 AGGGATGATTACAATGCTTCATCAAAGTCTCT
34172440 GTTTATAGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (34 bp):
AGGGATGATTACAATGCTTCATCAAAGTCTCTAT
Found at i:34178743 original size:9 final size:9
Alignment explanation
Indices: 34178731--34178761 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
34178721 CTTCATCTTC
34178731 TTCTCCAAT
1 TTCTCCAAT
34178740 TTCTCCAAT
1 TTCTCCAAT
34178749 TTCTCCAAT
1 TTCTCCAAT
34178758 TTCT
1 TTCT
34178762 AAAACACTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.19, C:0.32, G:0.00, T:0.48
Consensus pattern (9 bp):
TTCTCCAAT
Found at i:34180586 original size:16 final size:16
Alignment explanation
Indices: 34180565--34180595 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34180555 CATATTAGAG
34180565 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
34180581 CATATATATTTGAAA
1 CATATAAATTTGAAA
34180596 ACTTTTTTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:34180763 original size:26 final size:26
Alignment explanation
Indices: 34180734--34180785 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
34180724 TTTAAGAATT
34180734 TTTTAAAAAATATATAAA-TTTTGAAA
1 TTTTAAAAAAT-TATAAATTTTTGAAA
* * *
34180760 TTTTTATAAATTTTAAATTTTTGAAA
1 TTTTAAAAAATTATAAATTTTTGAAA
34180786 GTTATTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (26 bp):
TTTTAAAAAATTATAAATTTTTGAAA
Found at i:34180779 original size:17 final size:18
Alignment explanation
Indices: 34180746--34180781 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
34180736 TTAAAAAATA
34180746 TATAAATTTTGAAATTTT
1 TATAAATTTTGAAATTTT
34180764 TATAAATTTT-AAATTTT
1 TATAAATTTTGAAATTTT
34180781 T
1 T
34180782 GAAAGTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TATAAATTTTGAAATTTT
Found at i:34186047 original size:29 final size:29
Alignment explanation
Indices: 34185974--34186048 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 29
34185964 GGAGAACTGG
* * *
34185974 CCCGTGTGGCTTCACACGATCTGGCACACG
1 CCCGTGTGTC-TCACACGATCTGACACACA
* * * * *
34186004 TCCGTATATCCCACACGGTCTGACACACA
1 CCCGTGTGTCTCACACGATCTGACACACA
34186033 CCCGTGTGTCTCACAC
1 CCCGTGTGTCTCACAC
34186049 ACCCATGTCA
Statistics
Matches: 33, Mismatches: 12, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
29 27 0.82
30 6 0.18
ACGTcount: A:0.20, C:0.39, G:0.20, T:0.21
Consensus pattern (29 bp):
CCCGTGTGTCTCACACGATCTGACACACA
Found at i:34189625 original size:99 final size:96
Alignment explanation
Indices: 34189440--34189625 Score: 248
Period size: 99 Copynumber: 1.9 Consensus size: 96
34189430 TCTACAACAC
*
34189440 TGGTGGTTCATCCATAAATTACTAACTTTTATCTACAAATATGTTGTGCATCCACAACAAGTGGC
1 TGGTGGTTCATCCATAAATTACTAACGTTTATCTACAAATATGTTGTGCATCCACAACAAGTGGC
**
34189505 AACTTGTCTGTGAACTATTTTTTTTAAATAT
66 AACTTGTCTGCAAACTATTTTTTTTAAATAT
** * *
34189536 TGGTGGTTCATCCATAAATTACTGGTTGCGTTTATCTGCAGATATGTTGTGCA-CCTACAACAAG
1 TGGTGGTTCATCCATAAATTAC---TAACGTTTATCTACAAATATGTTGTGCATCC-ACAACAAG
* *
34189600 TGGCAGCTTGTCTGCAAACTGTTTTT
62 TGGCAACTTGTCTGCAAACTATTTTT
34189626 AAAATACTGG
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
96 22 0.29
98 2 0.03
99 53 0.69
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (96 bp):
TGGTGGTTCATCCATAAATTACTAACGTTTATCTACAAATATGTTGTGCATCCACAACAAGTGGC
AACTTGTCTGCAAACTATTTTTTTTAAATAT
Found at i:34194119 original size:31 final size:30
Alignment explanation
Indices: 34194076--34194164 Score: 90
Period size: 31 Copynumber: 3.0 Consensus size: 30
34194066 TTTAAATATG
* *
34194076 ATTAAATAAAAATTTTATGTATATATTTAA
1 ATTAAATTAAAATTTTATGTATATAATTAA
** * *
34194106 ATTACAATTAAAATTTCGTATATATAATTAC
1 ATTA-AATTAAAATTTTATGTATATAATTAA
**
34194137 ACCAAATTAAAA-TTTATGTATATAATTA
1 ATTAAATTAAAATTTTATGTATATAATTA
34194165 GACGCTTTAA
Statistics
Matches: 47, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
29 13 0.28
30 12 0.26
31 22 0.47
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (30 bp):
ATTAAATTAAAATTTTATGTATATAATTAA
Found at i:34196618 original size:6 final size:6
Alignment explanation
Indices: 34196607--34196639 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
34196597 GAAAATTTTG
34196607 ATAATT ATAATT ATAATT ATAAATT ATAATT AT
1 ATAATT ATAATT ATAATT AT-AATT ATAATT AT
34196640 TAGTTAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATAATT
Found at i:34196633 original size:13 final size:12
Alignment explanation
Indices: 34196607--34196639 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
34196597 GAAAATTTTG
34196607 ATAATTATAATT
1 ATAATTATAATT
34196619 ATAATTATAAATT
1 ATAATTAT-AATT
34196632 ATAATTAT
1 ATAATTAT
34196640 TAGTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATAATTATAATT
Found at i:34211215 original size:435 final size:435
Alignment explanation
Indices: 34210404--34211269 Score: 1480
Period size: 435 Copynumber: 2.0 Consensus size: 435
34210394 TTTGCCATTG
* *
34210404 AAGTATATGAAGGCGGTGAGGAGGAGTAAGAAGAGTATAAACAGGGCAAAGACAACGCATTTAAG
1 AAGTATATGAAGGCGGTGAGAAGGAGTAAGAAGAATATAAACAGGGCAAAGACAACGCATTTAAG
* *
34210469 CTCCAAGGGGAAGGGGATTGCTATGGTGTGACAAAATGCAGCAGCAGCTACAAGGACCCCAACTT
66 CTCCAAGGGGAAGGGGATTGCTATGGCGTAACAAAATGCAGCAGCAGCTACAAGGACCCCAACTT
* * *
34210534 TTTCTAATGTTTCTGAAGTTTGGGTAGAAATTGGTTTGATAAACAAAGCCAGTAAGAAAAGATTG
131 TTTCTAACGTTTCTGAAGTTTGGGTAGAAACTGGTTTGATAAACAAAGCCAATAAGAAAAGATTG
*
34210599 AAAGTAAGTAGGACGAGAAAGGAAAGCACAATCAAAGAAACATTGGATTGATTTTGATCGGTTTG
196 AAAGTAAGTAGGACGAGAAAGGAAAGCACAACCAAAGAAACATTGGATTGATTTTGATCGGTTTG
* * * *
34210664 GGCGTATTGGAATTGGAGCATGATAATGGGATACGAAAAACAAAATGACAGGACTGCGTTTATCC
261 GACGAATTGGAATTGGAGCACGATAATGGGATACGAAAAACAAAATGACAGGACTGCGCTTATCC
* *
34210729 ATTGCAGATGCTGCTGAGCTGCTGCAAGTTTCCGATGGGAGGGAGTTGGTGGCAGCGGTTGTTGT
326 ATTGCAGATGCTGCTGAGCTGCTGCAAGTTTCCGATGGGAGGGAATTGGTGGCAGCGATTGTTGT
*
34210794 TGGGGAAGCGGCGGTGTATGTGGTGGTGGTGATTGAAAGTCAACA
391 TGGGGAAGCGGCGGTGTATGTGGTGGCGGTGATTGAAAGTCAACA
*
34210839 AAGTATATGAAGGCGGTGAGAAGGAGTAAGAAGAATATAAACATGGCAAAGACAACGCATTTAAG
1 AAGTATATGAAGGCGGTGAGAAGGAGTAAGAAGAATATAAACAGGGCAAAGACAACGCATTTAAG
* *
34210904 CTCCAAGGGGAAGGGGATTGCTATGGCGTAACAAATTGCAGCAGCAGCTACAAGGACTCCAACTT
66 CTCCAAGGGGAAGGGGATTGCTATGGCGTAACAAAATGCAGCAGCAGCTACAAGGACCCCAACTT
*
34210969 TTTCTAACGTTTCTGAAGTTTGGGTAGAAACTGGTTTGATAAACAAAGCCAATAAGAAAAGTTTG
131 TTTCTAACGTTTCTGAAGTTTGGGTAGAAACTGGTTTGATAAACAAAGCCAATAAGAAAAGATTG
* *
34211034 AAAGTAAGTAGGATGAGAAAGGAAAGCACAACCAAAGAAACATTGGGTTGATTTTGATCGGTTTG
196 AAAGTAAGTAGGACGAGAAAGGAAAGCACAACCAAAGAAACATTGGATTGATTTTGATCGGTTTG
* * * *
34211099 GACGAATTGGAATTGGAGCACGGTCATGGGATACGAAAAACAAAATGAGAGGACTGCGCTTCTCC
261 GACGAATTGGAATTGGAGCACGATAATGGGATACGAAAAACAAAATGACAGGACTGCGCTTATCC
* * *
34211164 ATTGTAGATGCTGCTGAGCTGTTGCAAGTTTCTGATGGGAGGGAATTGGTGGCAGCGATTGTTGT
326 ATTGCAGATGCTGCTGAGCTGCTGCAAGTTTCCGATGGGAGGGAATTGGTGGCAGCGATTGTTGT
34211229 TGGGGAAGCGGCGGTGTATGTGGTGGCGGTGATTGAAAGTC
391 TGGGGAAGCGGCGGTGTATGTGGTGGCGGTGATTGAAAGTC
34211270 GGAGTGATTG
Statistics
Matches: 403, Mismatches: 28, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
435 403 1.00
ACGTcount: A:0.32, C:0.13, G:0.31, T:0.24
Consensus pattern (435 bp):
AAGTATATGAAGGCGGTGAGAAGGAGTAAGAAGAATATAAACAGGGCAAAGACAACGCATTTAAG
CTCCAAGGGGAAGGGGATTGCTATGGCGTAACAAAATGCAGCAGCAGCTACAAGGACCCCAACTT
TTTCTAACGTTTCTGAAGTTTGGGTAGAAACTGGTTTGATAAACAAAGCCAATAAGAAAAGATTG
AAAGTAAGTAGGACGAGAAAGGAAAGCACAACCAAAGAAACATTGGATTGATTTTGATCGGTTTG
GACGAATTGGAATTGGAGCACGATAATGGGATACGAAAAACAAAATGACAGGACTGCGCTTATCC
ATTGCAGATGCTGCTGAGCTGCTGCAAGTTTCCGATGGGAGGGAATTGGTGGCAGCGATTGTTGT
TGGGGAAGCGGCGGTGTATGTGGTGGCGGTGATTGAAAGTCAACA
Found at i:34219190 original size:31 final size:29
Alignment explanation
Indices: 34219144--34219219 Score: 80
Period size: 31 Copynumber: 2.6 Consensus size: 29
34219134 GGATAAATCT
* * *
34219144 CAAAATTATAGATGAACTTTGGTTTAATGTG
1 CAAATTTATACATGAACTTTGATTT--TGTG
* *
34219175 TAAATTTATACATGAATTTTGATTTTGTG
1 CAAATTTATACATGAACTTTGATTTTGTG
*
34219204 CAATTTTATACATGAA
1 CAAATTTATACATGAA
34219220 ATCCTGATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 18 0.47
31 20 0.53
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (29 bp):
CAAATTTATACATGAACTTTGATTTTGTG
Found at i:34219230 original size:29 final size:30
Alignment explanation
Indices: 34219179--34219238 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
34219169 AATGTGTAAA
**
34219179 TTTATACATGAATTTTGATTTTG-TGCAAT
1 TTTATACATGAATCCTGATTTTGATGCAAT
34219208 TTTATACATGAAATCCTGA-TTTGATGCAAT
1 TTTATACATG-AATCCTGATTTTGATGCAAT
34219238 T
1 T
34219239 CTCACAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 14 0.52
30 13 0.48
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (30 bp):
TTTATACATGAATCCTGATTTTGATGCAAT
Found at i:34224234 original size:12 final size:12
Alignment explanation
Indices: 34224217--34224242 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34224207 AACATTGGCC
34224217 GGTGATGATGAT
1 GGTGATGATGAT
34224229 GGTGATGATGAT
1 GGTGATGATGAT
34224241 GG
1 GG
34224243 AGGGAGGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.46, T:0.31
Consensus pattern (12 bp):
GGTGATGATGAT
Found at i:34228145 original size:14 final size:14
Alignment explanation
Indices: 34228108--34228145 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
34228098 ATTCCTTAAC
*
34228108 ATAATAATGGTTTT
1 ATAATAATGATTTT
34228122 ATAA-ACATGATTTT
1 ATAATA-ATGATTTT
34228136 ATAATAATGA
1 ATAATAATGA
34228146 GTTGCTTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 1 0.05
14 19 0.90
15 1 0.05
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.42
Consensus pattern (14 bp):
ATAATAATGATTTT
Found at i:34235429 original size:23 final size:24
Alignment explanation
Indices: 34235380--34235431 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
34235370 CAAATAAAGG
34235380 AATAAAGGAATTAAAATAAAAATA
1 AATAAAGGAATTAAAATAAAAATA
* * *
34235404 AATAAATGAA-TAATATATAAATA
1 AATAAAGGAATTAAAATAAAAATA
34235427 AATAA
1 AATAA
34235432 GTAAATAAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (24 bp):
AATAAAGGAATTAAAATAAAAATA
Found at i:34237578 original size:51 final size:51
Alignment explanation
Indices: 34237500--34237672 Score: 191
Period size: 51 Copynumber: 3.5 Consensus size: 51
34237490 TTCAATCTAC
* * *
34237500 TCCACTGCAACTTCTGGGAGATGAGATTTGTAACTTGTAGCTTTAATTTGT
1 TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATTTGT
* * *
34237551 TCCACTACAACTTCAGGGAAATAAGATTTGT-A----T--CTTCAATTTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATTTGT
* * * **
34237595 TCCACTGCTACTTCACGGAGATAAGATTTGTAACTTGTAGCTTTAATCCGT
1 TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATTTGT
34237646 TCCACTGCAACTTCA-GGAAATAAGATT
1 TCCACTGCAACTTCAGGGAAATAAGATT
34237673 CACTATCTTC
Statistics
Matches: 99, Mismatches: 16, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
44 36 0.36
45 1 0.01
46 1 0.01
49 1 0.01
50 12 0.12
51 48 0.48
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (51 bp):
TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATTTGT
Found at i:34237598 original size:95 final size:95
Alignment explanation
Indices: 34237208--34237714 Score: 501
Period size: 95 Copynumber: 5.3 Consensus size: 95
34237198 TTGTCACTTA
* * *
34237208 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGTTTTCATCTGTTCCACTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
** * * *
34237273 CAACGTTCAGAAAAATAAGATTTGTAACTTT
66 CAAC-TTCAGGGAAATAAGATTCGTATCTTC
* * **
34237304 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTACCTTGTAGCTTTAAAATGTTCCACTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
* * * *
34237369 CAACTTTAGGAAAATAAGATTCGCTATGGTAAATTT
66 CAACTTCAGGGAAATAAGATTCG-TA---T--CTTC
** * * * *
34237405 AATCCAAC-CCACTGCAATTTCA-GG-G---AGATTAG--ACTTGTAGCTTTAATCTGCTCCGCT
1 AAT-CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACT
** * *
34237462 GCAACTTCAGGGCGATGAGACTCGTATCTTC
65 GCAACTTCAGGGAAATAAGATTCGTATCTTC
* * * * *
34237493 AATCTACTCCACTGCAACTTCTGGGAGATGAGATTTGTAACTTGTAGCTTTAATTTGTTCCACTA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
*
34237558 CAACTTCAGGGAAATAAGATTTGTATCTTC
66 CAACTTCAGGGAAATAAGATTCGTATCTTC
* * * *
34237588 AATTTGCTCCACTGCTACTTCACGGAGATAAGATTTGTAACTTGTAGCTTTAATCCGTTCCACTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
*
34237653 CAACTTCA-GGAAATAAGATTCACTATCTTC
66 CAACTTCAGGGAAATAAGATTC-GTATCTTC
** * *
34237683 AATCTATTCCATTGCAACTTCAGGGAAATAAG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAG
34237715 GTTCGCTATC
Statistics
Matches: 335, Mismatches: 60, Indels: 33
0.78 0.14 0.08
Matches are distributed among these distances:
87 3 0.01
88 17 0.05
89 2 0.01
90 2 0.01
93 8 0.02
94 50 0.15
95 159 0.47
96 70 0.21
99 1 0.00
100 2 0.01
101 19 0.06
102 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (95 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
CAACTTCAGGGAAATAAGATTCGTATCTTC
Found at i:34237725 original size:45 final size:45
Alignment explanation
Indices: 34237260--34237806 Score: 165
Period size: 44 Copynumber: 11.8 Consensus size: 45
34237250 TGTAGTTTTC
* ** * * *
34237260 ATCTGTTCCACTGCAACGTTCAGAAAAATAAGATTTG-TAACTTTA
1 ATCTATTCCACTGCAAC-TTCAGGGAAATAAGATTCGCTATCTTCA
** * * *
34237305 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTACCTTGTAGCTTTA
1 ATCTATTCCACTGCAACTTCAGGGAAATAAGATTCG---C---TATCTTCA
** * * * * *
34237356 AAATGTTCCACTGCAACTTTAGGAAAATAAGATTCGCTATGGTAAATTTA
1 ATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGCTA---T--CTTCA
* ** * * * * *
34237406 ATCCAACCCACTGCAATTTCAGGGAGATTAGACTT-G-TAGCTTTA
1 ATCTATTCCACTGCAACTTCAGGGAAATAAGA-TTCGCTATCTTCA
** * ** * *
34237450 ATCTGCTCCGCTGCAACTTCAGGGCGATGAGACTCG-TATCTTCA
1 ATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCA
* * * * * * *
34237494 ATCTACTCCACTGCAACTTCTGGGAGATGAGATTTGTAACTTGTAGCTTTA
1 ATCTATTCCACTGCAACTTCAGGGAAATAAGATTCG---C---TATCTTCA
* * * *
34237545 ATTTGTTCCACTACAACTTCAGGGAAATAAGATTTG-TATCTTCA
1 ATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCA
* ** * * * * * *
34237589 ATTTGCTCCACTGCTACTTCACGGAGATAAGATTTGTAACTTGTAGCTTTA
1 ATCTATTCCACTGCAACTTCAGGGAAATAAGATTCG---C---TATCTTCA
** *
34237640 ATCCGTTCCACTGCAACTTCA-GGAAATAAGATTCACTATCTTCA
1 ATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCA
* *
34237684 ATCTATTCCATTGCAACTTCAGGGAAATAAGGTTCGCTATCTTCA
1 ATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCA
* * * * * * * *
34237729 AT-TTTCTCCATTACAACTTCGGGGAGATAAGTTTTG-TAGCTTCA
1 ATCTAT-TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCA
* * * * *
34237773 GTCTACTCTACTGCAACTTCAGAGATATAAGATT
1 ATCTATTCCACTGCAACTTCAGGGAAATAAGATT
34237807 TGTTATCTAC
Statistics
Matches: 378, Mismatches: 93, Indels: 63
0.71 0.17 0.12
Matches are distributed among these distances:
43 1 0.00
44 172 0.46
45 67 0.18
47 1 0.00
48 1 0.00
49 2 0.01
50 37 0.10
51 97 0.26
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (45 bp):
ATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCA
Found at i:34247671 original size:64 final size:64
Alignment explanation
Indices: 34247570--34247697 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
34247560 TAGCCCGAGA
*
34247570 ATCAGCTAAACCTGATAGCTCTGATACCAACAAATGTAACACCCCCTAATCCCAAACCGTCGCC
1 ATCAGCTAAACCTGATAGCTCTGATACCAACAAATGTAACACCCCCTAACCCCAAACCGTCGCC
34247634 ATCAGCTAAACCTGATAGCTCTGATACCAACAAATGTAACACCCCCTAACCCCAAACCGTCGCC
1 ATCAGCTAAACCTGATAGCTCTGATACCAACAAATGTAACACCCCCTAACCCCAAACCGTCGCC
34247698 GGAACAGGGC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.34, C:0.37, G:0.11, T:0.18
Consensus pattern (64 bp):
ATCAGCTAAACCTGATAGCTCTGATACCAACAAATGTAACACCCCCTAACCCCAAACCGTCGCC
Found at i:34251294 original size:33 final size:32
Alignment explanation
Indices: 34251236--34251298 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 32
34251226 ATTATTTAAT
34251236 TAATAAATATCTCTTAATTATAATAATAATAAA
1 TAATAAATATCTCTTAATTATAATAA-AATAAA
34251269 TAATAAATATCTAC-TAACTTA-AATAAAATA
1 TAATAAATATCT-CTTAA-TTATAATAAAATA
34251299 TTATAATTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
32 4 0.14
33 20 0.71
34 4 0.14
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.37
Consensus pattern (32 bp):
TAATAAATATCTCTTAATTATAATAAAATAAA
Found at i:34252320 original size:28 final size:28
Alignment explanation
Indices: 34252280--34252336 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
34252270 ATAAGGAGCC
34252280 GTCGGGTATGATCCTCTGCTCATGTTAA
1 GTCGGGTATGATCCTCTGCTCATGTTAA
34252308 GTCGGGTATGATCCTCTGCTCATGTTAA
1 GTCGGGTATGATCCTCTGCTCATGTTAA
34252336 G
1 G
34252337 ATAGTATAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.35
Consensus pattern (28 bp):
GTCGGGTATGATCCTCTGCTCATGTTAA
Found at i:34256739 original size:34 final size:34
Alignment explanation
Indices: 34256695--34256761 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
34256685 AATGATCTTT
*
34256695 CCCTTCATATCGAAGACTTTTATGTCTAGAGGAA
1 CCCTACATATCGAAGACTTTTATGTCTAGAGGAA
*
34256729 CCCTACATATCGAAGACTTTTATGTCTGGAGGA
1 CCCTACATATCGAAGACTTTTATGTCTAGAGGA
34256762 GTCATTCACC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (34 bp):
CCCTACATATCGAAGACTTTTATGTCTAGAGGAA
Found at i:34261239 original size:356 final size:356
Alignment explanation
Indices: 34260586--34261344 Score: 1500
Period size: 356 Copynumber: 2.1 Consensus size: 356
34260576 GAGGCCCGAT
*
34260586 TATCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATCAAATCAACAAGGTCC
1 TATCATTTCACGGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATCAAATCAACAAGGTCC
34260651 ATATAACATATTCATATCAATTAAGTACTAACATCATTCGAACGTATATAATTATACATCTCAAA
66 ATATAACATATTCATATCAATTAAGTACTAACATCATTCGAACGTATATAATTATACATCTCAAA
34260716 CACCTTTCTTTAATCTCATTTTCACACTTAGCATTTGATAGCTTATGCATAACATTTCACTCACA
131 CACCTTTCTTTAATCTCATTTTCACACTTAGCATTTGATAGCTTATGCATAACATTTCACTCACA
34260781 TTCATTTCAAACTTATCATTCGATTATAAAAGCACATTACATATTTACCAACATGTTATACTTGC
196 TTCATTTCAAACTTATCATTCGATTATAAAAGCACATTACATATTTACCAACATGTTATACTTGC
34260846 CATTAGGCCATATAAGTATGATACAATACACTATCATTTCATCTTTAACATTCGGCTAAATCCCT
261 CATTAGGCCATATAAGTATGATACAATACACTATCATTTCATCTTTAACATTCGGCTAAATCCCT
34260911 ATCTTACAAGGAACACCGAATTCACATAACA
326 ATCTTACAAGGAACACCGAATTCACATAACA
34260942 TATCATTTCACGGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATCAAATCAACAAGGTCC
1 TATCATTTCACGGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATCAAATCAACAAGGTCC
34261007 ATATAACATATTCATATCAATTAAGTACTAACATCATTCGAACGTATATAATTATACATCTCAAA
66 ATATAACATATTCATATCAATTAAGTACTAACATCATTCGAACGTATATAATTATACATCTCAAA
34261072 CACCTTTCTTTAATCTCATTTTCACACTTAGCATTTGATAGCTTATGCATAACATTTCACTCACA
131 CACCTTTCTTTAATCTCATTTTCACACTTAGCATTTGATAGCTTATGCATAACATTTCACTCACA
34261137 TTCATTTCAAACTTATCATTCGATTATAAAAGCACATTACATATTTACCAACATGTTATACTTGC
196 TTCATTTCAAACTTATCATTCGATTATAAAAGCACATTACATATTTACCAACATGTTATACTTGC
34261202 CATTAGGCCATATAAGTATGATACAATACACTATCATTTCATCTTTAACATTCGGCTAAATCCCT
261 CATTAGGCCATATAAGTATGATACAATACACTATCATTTCATCTTTAACATTCGGCTAAATCCCT
34261267 ATCTTACAAGGAACACCGAATTCACATAACA
326 ATCTTACAAGGAACACCGAATTCACATAACA
*
34261298 TATCATTTCACGGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATA
1 TATCATTTCACGGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
34261345 TAATACCAGC
Statistics
Matches: 401, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
356 401 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (356 bp):
TATCATTTCACGGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATCAAATCAACAAGGTCC
ATATAACATATTCATATCAATTAAGTACTAACATCATTCGAACGTATATAATTATACATCTCAAA
CACCTTTCTTTAATCTCATTTTCACACTTAGCATTTGATAGCTTATGCATAACATTTCACTCACA
TTCATTTCAAACTTATCATTCGATTATAAAAGCACATTACATATTTACCAACATGTTATACTTGC
CATTAGGCCATATAAGTATGATACAATACACTATCATTTCATCTTTAACATTCGGCTAAATCCCT
ATCTTACAAGGAACACCGAATTCACATAACA
Found at i:34261385 original size:38 final size:38
Alignment explanation
Indices: 34261342--34261498 Score: 260
Period size: 38 Copynumber: 4.1 Consensus size: 38
34261332 AAAGGCTCGA
* *
34261342 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
34261380 ATATAATACCAGCAAGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
34261418 ATATATTACCAGCACGAAGCCTGCGGAATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
34261456 ATATAATACCAGCACGAAACCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
34261494 ATATA
1 ATATA
34261499 CATTAAATAT
Statistics
Matches: 110, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 110 1.00
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:34267004 original size:356 final size:356
Alignment explanation
Indices: 34266351--34267109 Score: 1509
Period size: 356 Copynumber: 2.1 Consensus size: 356
34266341 GAGGCCCGAT
34266351 TATCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATCAAATCAACAAGTTCC
1 TATCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATCAAATCAACAAGTTCC
34266416 ATATAACATATTCATATCAATTAAGTACTAACATCATTCGAACGTATATAATTATACATCTCAAA
66 ATATAACATATTCATATCAATTAAGTACTAACATCATTCGAACGTATATAATTATACATCTCAAA
34266481 CACCTTTCTTTCATCTCATTTTCACACTTAGCATTTGATAGCTTATGCATAACATTTCACTCACA
131 CACCTTTCTTTCATCTCATTTTCACACTTAGCATTTGATAGCTTATGCATAACATTTCACTCACA
34266546 TTCATTTCAAACTTATCATTCGATTATAAAAGCACATTACATATTTACCAACATGTTATACTTGC
196 TTCATTTCAAACTTATCATTCGATTATAAAAGCACATTACATATTTACCAACATGTTATACTTGC
34266611 CATTAGGCCATATAAGTATGATACAATACACTATCATTTCACCTTTAACATTCGGCTAAATCCCT
261 CATTAGGCCATATAAGTATGATACAATACACTATCATTTCACCTTTAACATTCGGCTAAATCCCT
34266676 ATCTTACAAGGAACACCGAATTCACATAACA
326 ATCTTACAAGGAACACCGAATTCACATAACA
34266707 TATCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATCAAATCAACAAGTTCC
1 TATCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATCAAATCAACAAGTTCC
34266772 ATATAACATATTCATATCAATTAAGTACTAACATCATTCGAACGTATATAATTATACATCTCAAA
66 ATATAACATATTCATATCAATTAAGTACTAACATCATTCGAACGTATATAATTATACATCTCAAA
34266837 CACCTTTCTTTCATCTCATTTTCACACTTAGCATTTGATAGCTTATGCATAACATTTCACTCACA
131 CACCTTTCTTTCATCTCATTTTCACACTTAGCATTTGATAGCTTATGCATAACATTTCACTCACA
34266902 TTCATTTCAAACTTATCATTCGATTATAAAAGCACATTACATATTTACCAACATGTTATACTTGC
196 TTCATTTCAAACTTATCATTCGATTATAAAAGCACATTACATATTTACCAACATGTTATACTTGC
34266967 CATTAGGCCATATAAGTATGATACAATACACTATCATTTCACCTTTAACATTCGGCTAAATCCCT
261 CATTAGGCCATATAAGTATGATACAATACACTATCATTTCACCTTTAACATTCGGCTAAATCCCT
34267032 ATCTTACAAGGAACACCGAATTCACATAACA
326 ATCTTACAAGGAACACCGAATTCACATAACA
*
34267063 TATCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATA
1 TATCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
34267110 TAATACCAGC
Statistics
Matches: 402, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
356 402 1.00
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.32
Consensus pattern (356 bp):
TATCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATCAAATCAACAAGTTCC
ATATAACATATTCATATCAATTAAGTACTAACATCATTCGAACGTATATAATTATACATCTCAAA
CACCTTTCTTTCATCTCATTTTCACACTTAGCATTTGATAGCTTATGCATAACATTTCACTCACA
TTCATTTCAAACTTATCATTCGATTATAAAAGCACATTACATATTTACCAACATGTTATACTTGC
CATTAGGCCATATAAGTATGATACAATACACTATCATTTCACCTTTAACATTCGGCTAAATCCCT
ATCTTACAAGGAACACCGAATTCACATAACA
Found at i:34267150 original size:38 final size:38
Alignment explanation
Indices: 34267107--34267414 Score: 501
Period size: 38 Copynumber: 8.1 Consensus size: 38
34267097 AAAGGCTCGA
* *
34267107 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
34267145 ATATAATACCAGCACCAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
34267183 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
34267221 ATACAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
34267259 ATATAATACCAGCACGAAGCCTGTGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * **
34267297 ACATATTACCAGCACGAAGCCTGCGGGATTT-ACCTAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
34267334 ATATAATACCAGCACGAAGCCTGCGGGATTTAACTCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
34267372 ATATAATACCAGTACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
34267410 ATATA
1 ATATA
34267415 CATCAAATAT
Statistics
Matches: 249, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
37 33 0.13
38 216 0.87
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.20
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:34271924 original size:44 final size:42
Alignment explanation
Indices: 34271876--34272193 Score: 151
Period size: 44 Copynumber: 7.2 Consensus size: 42
34271866 CTTATCTCCT
34271876 TAAGCAGTAGTGGAGTAGATCGAAGGCAGTAAGCCTTAACCCCC
1 TAAGCAGTAGTGGAGTAGATCGAA-G-AGTAAGCCTTAACCCCC
** * * * * * *
34271920 TAAGCAGTAG-GGTAACAGGCTGGAA-ATTACAGATCTTATCTCCC
1 TAAGCAGTAGTGG-AGTA-GATCGAAGAGTA-AG-CCTTAACCCCC
34271964 TAAGCAGTAGTGGAGTAGATCGAAGATAGTAAGCCTTAACCCCC
1 TAAGCAGTAGTGGAGTAGATCGAAG--AGTAAGCCTTAACCCCC
* * ** * * * ** * *
34272008 TAAGCAGTAGAGAAACAGGCTAGAA-ATTACAGATGTTATCTCCC
1 TAAGCAGTAGTGGAGTA-GATCGAAGAGTA-AG-CCTTAACCCCC
* * *
34272052 TAAGCAATAGTGGAGCAGATTGAAGACGGTAAGCCTTAACCCCC
1 TAAGCAGTAGTGGAGTAGATCGAAGA--GTAAGCCTTAACCCCC
* ** * * * * * *
34272096 TAAGGAGTAG-GGTAACAGGCTGGAA-ATTACAGATCTTATCTCCC
1 TAAGCAGTAGTGG-AGTA-GATCGAAGAGTA-AG-CCTTAACCCCC
34272140 TAAGCAGTAGTGGAGTAGATCGAAGATAGTAAGCCTTAACCCCC
1 TAAGCAGTAGTGGAGTAGATCGAAG--AGTAAGCCTTAACCCCC
34272184 TAAGCAGTAG
1 TAAGCAGTAG
34272194 GGTAACAGGC
Statistics
Matches: 196, Mismatches: 56, Indels: 44
0.66 0.19 0.15
Matches are distributed among these distances:
42 8 0.04
43 25 0.13
44 130 0.66
45 25 0.13
46 8 0.04
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (42 bp):
TAAGCAGTAGTGGAGTAGATCGAAGAGTAAGCCTTAACCCCC
Found at i:34271968 original size:88 final size:88
Alignment explanation
Indices: 34271809--34272293 Score: 718
Period size: 88 Copynumber: 5.5 Consensus size: 88
34271799 CATGTCCCTA
* * * * * *
34271809 GAAGACGGTGAGCCTTAACTCCCTAAGCAGTAGGGTAATAGGCTGGAAACTAAAGATCTTATCTC
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTC
*
34271874 CTTAAGCAGTAGTGGAGTAGATC
66 CCTAAGCAGTAGTGGAGTAGATC
*
34271897 GAAGGCAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTC
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTC
34271962 CCTAAGCAGTAGTGGAGTAGATC
66 CCTAAGCAGTAGTGGAGTAGATC
* * * * *
34271985 GAAGATAGTAAGCCTTAACCCCCTAAGCAGTAGAGAAACAGGCTAGAAATTACAGATGTTATCTC
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTC
* * *
34272050 CCTAAGCAATAGTGGAGCAGATT
66 CCTAAGCAGTAGTGGAGTAGATC
* *
34272073 GAAGACGGTAAGCCTTAACCCCCTAAGGAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTC
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTC
34272138 CCTAAGCAGTAGTGGAGTAGATC
66 CCTAAGCAGTAGTGGAGTAGATC
* * * *
34272161 GAAGATAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTATAGATCTTATCAC
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTC
* *
34272226 CCTAAGCAGTAGGGGAGCAGATC
66 CCTAAGCAGTAGTGGAGTAGATC
* * * *
34272249 AAAGACGGTGAGCCTTAACCCCCTCAGCAGTAGGGTAACAGGCTG
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTG
34272294 AAGATCAAAA
Statistics
Matches: 357, Mismatches: 40, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 357 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (88 bp):
GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTC
CCTAAGCAGTAGTGGAGTAGATC
Found at i:34272229 original size:44 final size:43
Alignment explanation
Indices: 34271910--34272239 Score: 174
Period size: 44 Copynumber: 7.5 Consensus size: 43
34271900 GGCAGTAAGC
* *
34271910 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGAT
1 CTTATCCCCCTAAGCAGTAGGG-AACAGGCTGAAAATTACAGAT
* ** * * *
34271954 CTTATCTCCCTAAGCAGTAGTGGAGTA-GATCGAAGATAGTA-AG-C
1 CTTATCCCCCTAAGCAGTAG-GGAACAGGCT-GAA-A-ATTACAGAT
* *
34271998 CTTAACCCCCTAAGCAGTAGAGAAACAGGCT-AGAAATTACAGAT
1 CTTATCCCCCTAAGCAGTAG-GGAACAGGCTGA-AAATTACAGAT
* * * * ** ** *
34272042 GTTATCTCCCTAAGCAATAGTGGAGCAGATTGAAGACGGTA-AG-C
1 CTTATCCCCCTAAGCAGTAG-GGAACAGGCTGAA-A-ATTACAGAT
* * *
34272086 CTTAACCCCCTAAGGAGTAGGGTAACAGGCTGGAAATTACAGAT
1 CTTATCCCCCTAAGCAGTAGGG-AACAGGCTGAAAATTACAGAT
* ** * * *
34272130 CTTATCTCCCTAAGCAGTAGTGGAGTA-GATCGAAGATAGTA-AG-C
1 CTTATCCCCCTAAGCAGTAG-GGAACAGGCT-GAA-A-ATTACAGAT
* *
34272174 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTATAGAT
1 CTTATCCCCCTAAGCAGTAGGG-AACAGGCTGAAAATTACAGAT
*
34272218 CTTATCACCCTAAGCAGTAGGG
1 CTTATCCCCCTAAGCAGTAGGG
34272240 GAGCAGATCA
Statistics
Matches: 205, Mismatches: 59, Indels: 44
0.67 0.19 0.14
Matches are distributed among these distances:
42 8 0.04
43 18 0.09
44 153 0.75
45 18 0.09
46 8 0.04
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (43 bp):
CTTATCCCCCTAAGCAGTAGGGAACAGGCTGAAAATTACAGAT
Found at i:34272555 original size:45 final size:42
Alignment explanation
Indices: 34272442--34272564 Score: 140
Period size: 41 Copynumber: 2.9 Consensus size: 42
34272432 AGCTATGAAT
*
34272442 AAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCA-GATCA
1 AAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATCA
* * *
34272483 AAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGA
1 AAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATCA
* * * *
34272525 AGTCACCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 A---AACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
34272565 ACTAAAACAC
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 34 0.49
42 4 0.06
45 31 0.45
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (42 bp):
AAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATCA
Found at i:34272918 original size:19 final size:19
Alignment explanation
Indices: 34272865--34272918 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
34272855 AAGCCCAAAT
34272865 CAAA-CCAAAACCCAGATTA
1 CAAACCCAAAACCCA-ATTA
* ** *
34272884 AAAACCCATCAGCCAATTA
1 CAAACCCAAAACCCAATTA
34272903 CAAACCCAAAACCCAA
1 CAAACCCAAAACCCAA
34272919 ACCTAAATCA
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.52, C:0.35, G:0.04, T:0.09
Consensus pattern (19 bp):
CAAACCCAAAACCCAATTA
Found at i:34274051 original size:28 final size:27
Alignment explanation
Indices: 34273991--34274052 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 27
34273981 ATCATTTTTC
*
34273991 ATTATTTTGCTATTTTATTTTTAAATT
1 ATTATTTTGCTATTTTATATTTAAATT
*
34274018 AGTTATTTT-CTATTATTATATTTATTATT
1 A-TTATTTTGCTATT-TTATATTTA-AATT
34274047 ATTATT
1 ATTATT
34274053 GTTTTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 6 0.20
28 20 0.67
29 4 0.13
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.66
Consensus pattern (27 bp):
ATTATTTTGCTATTTTATATTTAAATT
Found at i:34274060 original size:15 final size:15
Alignment explanation
Indices: 34274021--34274062 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
34274011 TTAAATTAGT
*
34274021 TATTTTCTATTATTA
1 TATTTTTTATTATTA
*
34274036 TATTTATTATTATTA
1 TATTTTTTATTATTA
34274051 T-TGTTTTTATTA
1 TAT-TTTTTATTA
34274063 CTGTTATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 1 0.04
15 22 0.96
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (15 bp):
TATTTTTTATTATTA
Found at i:34274151 original size:22 final size:22
Alignment explanation
Indices: 34274126--34274167 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
34274116 TACTTTCGAT
34274126 TATTATCATTATTAACATATAC
1 TATTATCATTATTAACATATAC
* *
34274148 TATTATTATTATTAATATAT
1 TATTATCATTATTAACATAT
34274168 TATTATTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (22 bp):
TATTATCATTATTAACATATAC
Found at i:34274171 original size:20 final size:20
Alignment explanation
Indices: 34274124--34274190 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
34274114 ATTACTTTCG
*
34274124 ATTATTATCATTATTAACATAT
1 ATTATTATTATTATT-A-ATAT
*
34274146 ACTATTATTATTATTAATAT
1 ATTATTATTATTATTAATAT
* *
34274166 ATTATTATTACTATTTATAT
1 ATTATTATTATTATTAATAT
*
34274186 GTTAT
1 ATTAT
34274191 CATTTCTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 25 0.64
21 1 0.03
22 13 0.33
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.55
Consensus pattern (20 bp):
ATTATTATTATTATTAATAT
Found at i:34274357 original size:41 final size:41
Alignment explanation
Indices: 34274276--34274357 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 41
34274266 TATCATCCTA
* * *
34274276 TTTTATTACTATTATCACTTTTGTAATTACTATTACTATTG
1 TTTTATTACTATTATCACTTTAGCAATTACTACTACTATTG
* * *
34274317 TTTTATTACTATTATTA-TTTAGCATATTATTACTATTATTG
1 TTTTATTACTATTATCACTTTAGCA-ATTACTACTACTATTG
34274358 CCATCATTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
40 5 0.15
41 29 0.85
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.57
Consensus pattern (41 bp):
TTTTATTACTATTATCACTTTAGCAATTACTACTACTATTG
Found at i:34274455 original size:3 final size:3
Alignment explanation
Indices: 34274217--34274439 Score: 87
Period size: 3 Copynumber: 74.0 Consensus size: 3
34274207 TATTACGGTT
* * * * *
34274217 TTA TTA TTA TTA CTA TTA TTA CTA TTT TTA TT- TTCA TCA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
* * * * * *
34274262 TTA TTA TCA TCCTA TT- TTA TTA CTA TTA TCA CTT- TTG TAA TTA CTA
1 TTA TTA TTA T--TA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* * * ** *
34274308 TTA CTA TTG TT- TTA TTA CTA TTA TTA TTTA GCA -TA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* ** * * * *
34274352 TTA TTG CCA TCA TTA TTA TTA TTA TTA TTA CTTT TTA CTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* * * * * *
34274398 TTA CTA CTA TTA ATA TCA TTA GTA TTA GTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34274440 CTGTTTTCAT
Statistics
Matches: 158, Mismatches: 51, Indels: 22
0.68 0.22 0.10
Matches are distributed among these distances:
2 9 0.06
3 140 0.89
4 7 0.04
5 2 0.01
ACGTcount: A:0.30, C:0.11, G:0.03, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:34276012 original size:23 final size:23
Alignment explanation
Indices: 34275981--34276029 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
34275971 AAATGAGATG
34275981 TTTAAAAAT-TAATTTTAA-ATATT
1 TTTAAAAATAT-ATTTTAATA-ATT
*
34276004 TTTATAAATATATTTTAATAATT
1 TTTAAAAATATATTTTAATAATT
34276027 TTT
1 TTT
34276030 CGATTCAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTAAAAATATATTTTAATAATT
Found at i:34277212 original size:21 final size:21
Alignment explanation
Indices: 34277188--34277231 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
34277178 CTTGGTATGA
* *
34277188 TGCAAGGTGAGCTTACTCAGT
1 TGCAAGCTGAACTTACTCAGT
*
34277209 TGCAAGCTGAATTTACTCAGT
1 TGCAAGCTGAACTTACTCAGT
34277230 TG
1 TG
34277232 GATGCTAGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (21 bp):
TGCAAGCTGAACTTACTCAGT
Found at i:34281214 original size:15 final size:15
Alignment explanation
Indices: 34281194--34281223 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34281184 TATTTTATTT
*
34281194 ATATTAGGATAATTA
1 ATATTAAGATAATTA
34281209 ATATTAAGATAATTA
1 ATATTAAGATAATTA
34281224 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:34281267 original size:10 final size:10
Alignment explanation
Indices: 34281248--34281279 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
34281238 ATTTAGGATT
34281248 TTAT-TTTAA
1 TTATCTTTAA
34281257 TTATCTTTAA
1 TTATCTTTAA
34281267 TTATCTTTAA
1 TTATCTTTAA
34281277 TTA
1 TTA
34281280 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:34282088 original size:6 final size:7
Alignment explanation
Indices: 34282073--34282097 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34282063 AGATTCTTAA
34282073 TTTTATT
1 TTTTATT
34282080 TTTTATT
1 TTTTATT
34282087 TTTTATT
1 TTTTATT
34282094 TTTT
1 TTTT
34282098 CAGGAACGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:34287930 original size:19 final size:19
Alignment explanation
Indices: 34287908--34287944 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
34287898 TTTAGTTAGT
34287908 TTATATTTACCTTTTGGAC
1 TTATATTTACCTTTTGGAC
34287927 TTATATTTACCTTTTGGA
1 TTATATTTACCTTTTGGA
34287945 GTAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.14, G:0.11, T:0.54
Consensus pattern (19 bp):
TTATATTTACCTTTTGGAC
Found at i:34297458 original size:43 final size:43
Alignment explanation
Indices: 34297364--34297522 Score: 117
Period size: 43 Copynumber: 3.7 Consensus size: 43
34297354 GGTTACCGAG
* *
34297364 ATGAGATTACATGTAAAACCATGTCTGGGAAATTGGAATTGTA
1 ATGAGATTACATGTAAGACCATGTCTGGGAAATTGGAATCGTA
* * *
34297407 TTGAGATTACATGTAAGACCATGTTTGGGACATT-GATATCGTTA
1 ATGAGATTACATGTAAGACCATGTCTGGGAAATTGGA-ATCG-TA
* * * * * * * * *
34297451 AT-CGATTACGTGTACGACCCTGCCTAGGACAGTGGCATCG-A
1 ATGAGATTACATGTAAGACCATGTCTGGGAAATTGGAATCGTA
* * *
34297492 TATGTGATAACATGTAAGACCATATCTGGGA
1 -ATGAGATTACATGTAAGACCATGTCTGGGA
34297523 TATGGCATTG
Statistics
Matches: 88, Mismatches: 23, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
41 1 0.01
42 4 0.05
43 79 0.90
44 4 0.05
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (43 bp):
ATGAGATTACATGTAAGACCATGTCTGGGAAATTGGAATCGTA
Found at i:34299325 original size:30 final size:30
Alignment explanation
Indices: 34299289--34299407 Score: 175
Period size: 30 Copynumber: 4.0 Consensus size: 30
34299279 GTCCCAGAGC
*
34299289 AGTTCATATAACCCGGACATAGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
*
34299319 AGTTCATATCACCCGGACATGGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
* *
34299349 AGTTTATATCACCCGGACATGGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
* * *
34299379 AGTTCATATCACCAGGATATAGGCGGTTC
1 AGTTCATATCACCCGGACATAGGTGGTTC
34299408 AAGTCTATTT
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 81 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (30 bp):
AGTTCATATCACCCGGACATAGGTGGTTCG
Found at i:34312550 original size:126 final size:124
Alignment explanation
Indices: 34312325--34312790 Score: 693
Period size: 126 Copynumber: 3.7 Consensus size: 124
34312315 NNNNNNNGTC
*
34312325 AAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCACGTGGACGCTC
1 AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCCACGTGGACGCTC
* *
34312390 TTTTGCTACAGTAGTATTTGAAAAAATAATTTTGAGAAGACGTGTCTATGCAAATAGTGT
66 TTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCT-TGCAAATAGTGT
* *
34312450 AAAAAACGCTTCAAGCAGGATGCATTGTT-AGTAAAAGTACTGAAAGAAGCTTCCACGTGGACGC
1 -AAAAACGCTTCAAGCAGGATGCATT-TTCAGCAAAAGTACTGAAAGAAGCTCCCACGTGGACGC
*
34312514 TCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAAATAGTGGT
64 TCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCT-TGCAAATAGT-GT
* * * *
34312577 AAAAACGCTTCAAGTAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCCACGTGGATGCTC
1 AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCCACGTGGACGCTC
* * * *
34312642 TTTTACTACAGTGGTCTCTAAAAAAATAATTTTGAGAAGACATGTC-TGCATAAATAGTGT
66 TTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTTGC--AAATAGTGT
*
34312702 CAAAAACGCTTCAAGCAGGATGCATTTTCAACAAAAGTACTGAAAGAAGCTCCCACGTGGACGCT
1 -AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCCACGTGGACGCT
* *
34312767 CTTTTGCTACAGTGGTTTCTGAAA
65 CTTTTGCTACAGTAGTCTCTGAAA
34312791 TAACTTGGGC
Statistics
Matches: 308, Mismatches: 26, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
124 2 0.01
125 4 0.01
126 299 0.97
127 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (124 bp):
AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCCACGTGGACGCTC
TTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTTGCAAATAGTGT
Found at i:34317634 original size:11 final size:11
Alignment explanation
Indices: 34317586--34317626 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
34317576 TAACGAGAGT
34317586 TTTGAGAGGAA
1 TTTGAGAGGAA
*
34317597 TTTAAGA-GAGA
1 TTTGAGAGGA-A
34317608 TTTGAGAGGAA
1 TTTGAGAGGAA
34317619 TTTGAGAG
1 TTTGAGAG
34317627 AATATTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 2 0.08
11 22 0.85
12 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.34, T:0.29
Consensus pattern (11 bp):
TTTGAGAGGAA
Found at i:34317634 original size:22 final size:22
Alignment explanation
Indices: 34317572--34317627 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
34317562 TTTTTGAAAA
*
34317572 AATTTAACGAGAGTTTTGAGAGG
1 AATTTAA-GAGAGATTTGAGAGG
34317595 AATTTAAGAGAGATTTGAGAGG
1 AATTTAAGAGAGATTTGAGAGG
*
34317617 AATTTGAGAGA
1 AATTTAAGAGA
34317628 ATATTGAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 24 0.77
23 7 0.23
ACGTcount: A:0.39, C:0.02, G:0.30, T:0.29
Consensus pattern (22 bp):
AATTTAAGAGAGATTTGAGAGG
Found at i:34320787 original size:2 final size:2
Alignment explanation
Indices: 34320782--34320821 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
34320772 ATATATATAA
34320782 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
34320822 CAAATCCTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:34322283 original size:4 final size:4
Alignment explanation
Indices: 34322276--34322317 Score: 75
Period size: 4 Copynumber: 10.5 Consensus size: 4
34322266 TATATATATG
*
34322276 CATA CATA CATA CATA CATA CATA CATA CATA CATA TATA CA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CA
34322318 CACAAAGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:34322347 original size:2 final size:2
Alignment explanation
Indices: 34322340--34322400 Score: 113
Period size: 2 Copynumber: 30.5 Consensus size: 2
34322330 TATACATGGG
*
34322340 GA GA GA GA GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34322382 GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA G
34322401 CGAAGGGAGG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:34324416 original size:36 final size:36
Alignment explanation
Indices: 34324372--34324444 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
34324362 AAATAATTAT
34324372 ATTTGAAATATTTTACATATAATATTTGAAATAAAA
1 ATTTGAAATATTTTACATATAATATTTGAAATAAAA
34324408 ATTTGAAATATTTTACATATAATATTTGAAATAAAA
1 ATTTGAAATATTTTACATATAATATTTGAAATAAAA
34324444 A
1 A
34324445 CTAGCCTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (36 bp):
ATTTGAAATATTTTACATATAATATTTGAAATAAAA
Done.